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- 10009 discussions
11 Nov '08
details: http://www.bx.psu.edu/hg/galaxy/rev/e8f25fc7dde0
changeset: 1618:e8f25fc7dde0
user: James Taylor <james(a)jamestaylor.org>
date: Mon Nov 10 15:38:29 2008 -0500
description:
Automated merge with ssh://scofield.bx.psu.edu//depot/projects/universe/hg
0 file(s) affected in this change:
diffs (31 lines):
diff -r 330bf412f311 -r e8f25fc7dde0 lib/galaxy/model/__init__.py
--- a/lib/galaxy/model/__init__.py Mon Nov 10 15:30:07 2008 -0500
+++ b/lib/galaxy/model/__init__.py Mon Nov 10 15:38:29 2008 -0500
@@ -573,7 +573,7 @@
self.tool_inputs = None
self.tool_errors = None
self.position = None
- self.input_connections = None
+ self.input_connections = []
self.config = None
class WorkflowStepConnection( object ):
diff -r 330bf412f311 -r e8f25fc7dde0 lib/galaxy/web/controllers/workflow.py
--- a/lib/galaxy/web/controllers/workflow.py Mon Nov 10 15:30:07 2008 -0500
+++ b/lib/galaxy/web/controllers/workflow.py Mon Nov 10 15:38:29 2008 -0500
@@ -306,7 +306,6 @@
workflow.stored_workflow = stored
stored.latest_workflow = workflow
# Persist
- trans.sa_session.save( stored )
trans.sa_session.flush()
# Return something informative
errors = []
@@ -520,6 +519,7 @@
outputs[ step.id ] = tool.execute( trans, step.state.inputs )
else:
outputs[ step.id ] = step.module.execute( trans, step.state )
+
return trans.fill_template( "workflow/run_complete.mako",
workflow=stored,
outputs=outputs )
1
0
details: http://www.bx.psu.edu/hg/galaxy/rev/6d78c087e30f
changeset: 1617:6d78c087e30f
user: James Taylor <james(a)jamestaylor.org>
date: Mon Nov 10 15:37:21 2008 -0500
description:
imported patch workflow-bugfix-10Nov2008
2 file(s) affected in this change:
lib/galaxy/model/__init__.py
lib/galaxy/web/controllers/workflow.py
diffs (31 lines):
diff -r 2d7f872ddaf8 -r 6d78c087e30f lib/galaxy/model/__init__.py
--- a/lib/galaxy/model/__init__.py Mon Nov 10 14:22:01 2008 -0500
+++ b/lib/galaxy/model/__init__.py Mon Nov 10 15:37:21 2008 -0500
@@ -573,7 +573,7 @@
self.tool_inputs = None
self.tool_errors = None
self.position = None
- self.input_connections = None
+ self.input_connections = []
self.config = None
class WorkflowStepConnection( object ):
diff -r 2d7f872ddaf8 -r 6d78c087e30f lib/galaxy/web/controllers/workflow.py
--- a/lib/galaxy/web/controllers/workflow.py Mon Nov 10 14:22:01 2008 -0500
+++ b/lib/galaxy/web/controllers/workflow.py Mon Nov 10 15:37:21 2008 -0500
@@ -306,7 +306,6 @@
workflow.stored_workflow = stored
stored.latest_workflow = workflow
# Persist
- trans.sa_session.save( stored )
trans.sa_session.flush()
# Return something informative
errors = []
@@ -520,6 +519,7 @@
outputs[ step.id ] = tool.execute( trans, step.state.inputs )
else:
outputs[ step.id ] = step.module.execute( trans, step.state )
+
return trans.fill_template( "workflow/run_complete.mako",
workflow=stored,
outputs=outputs )
1
0
10 Nov '08
details: http://www.bx.psu.edu/hg/galaxy/rev/330bf412f311
changeset: 1616:330bf412f311
user: Greg Von Kuster <greg(a)bx.psu.edu>
date: Mon Nov 10 15:30:07 2008 -0500
description:
Fix for purging dataset - add check for pre-history_dataset_association approach to sharing.
1 file(s) affected in this change:
scripts/cleanup_datasets/cleanup_datasets.py
diffs (122 lines):
diff -r 2d7f872ddaf8 -r 330bf412f311 scripts/cleanup_datasets/cleanup_datasets.py
--- a/scripts/cleanup_datasets/cleanup_datasets.py Mon Nov 10 14:22:01 2008 -0500
+++ b/scripts/cleanup_datasets/cleanup_datasets.py Mon Nov 10 15:30:07 2008 -0500
@@ -79,7 +79,7 @@
# Provide info about the histories and datasets that will be affected if the delete_userless_histories function is executed.
history_count = 0
dataset_count = 0
- where = ( h.table.c.user_id==None ) & ( h.table.c.deleted=='f' ) & ( h.table.c.update_time < cutoff_time )
+ where = ( h.table.c.user_id==None ) & ( h.table.c.deleted==False ) & ( h.table.c.update_time < cutoff_time )
histories = h.query().filter( where ).options( eagerload( 'active_datasets' ) ).all()
print '# The following datasets and associated userless histories will be deleted'
@@ -102,7 +102,7 @@
# The datasets associated with each history are also deleted. Nothing is removed from disk.
history_count = 0
dataset_count = 0
- h_where = ( h.table.c.user_id==None ) & ( h.table.c.deleted=='f' ) & ( h.table.c.update_time < cutoff_time )
+ h_where = ( h.table.c.user_id==None ) & ( h.table.c.deleted==False ) & ( h.table.c.update_time < cutoff_time )
print '# The following datasets and associated userless histories have been deleted'
start = time.clock()
@@ -136,7 +136,7 @@
history_count = 0
dataset_count = 0
disk_space = 0
- h_where = ( h.table.c.deleted=='t' ) & ( h.table.c.purged=='f' ) & ( h.table.c.update_time < cutoff_time )
+ h_where = ( h.table.c.deleted==True ) & ( h.table.c.purged==False ) & ( h.table.c.update_time < cutoff_time )
print '# The following datasets and associated deleted histories will be purged'
start = time.clock()
@@ -169,7 +169,7 @@
disk_space = 0
file_size = 0
errors = False
- h_where = ( h.table.c.deleted=='t' ) & ( h.table.c.purged=='f' ) & ( h.table.c.update_time < cutoff_time )
+ h_where = ( h.table.c.deleted==True ) & ( h.table.c.purged==False ) & ( h.table.c.update_time < cutoff_time )
print '# The following datasets and associated deleted histories have been purged'
start = time.clock()
@@ -187,7 +187,7 @@
dataset.file_size = 0
if remove_from_disk:
dataset.flush()
- errmsg = purge_dataset( dataset, m )
+ errmsg = purge_dataset( dataset, d, m )
if errmsg:
errors = True
print errmsg
@@ -221,7 +221,7 @@
# Provide info about the datasets that will be affected if the purge_datasets function is executed.
dataset_count = 0
disk_space = 0
- where = ( d.table.c.deleted=='t' ) & ( d.table.c.purgable=='t' ) & ( d.table.c.purged=='f' ) & ( d.table.c.update_time < cutoff_time )
+ where = ( d.table.c.deleted==True ) & ( d.table.c.purgable==True ) & ( d.table.c.purged==False ) & ( d.table.c.update_time < cutoff_time )
print '# The following deleted datasets will be purged'
start = time.clock()
@@ -243,7 +243,7 @@
dataset_count = 0
disk_space = 0
file_size = 0
- where = ( d.table.c.deleted=='t' ) & ( d.table.c.purgable=='t' ) & ( d.table.c.purged=='f' ) & ( d.table.c.update_time < cutoff_time )
+ where = ( d.table.c.deleted==True ) & ( d.table.c.purgable==True ) & ( d.table.c.purged==False ) & ( d.table.c.update_time < cutoff_time )
print '# The following deleted datasets have been purged'
start = time.clock()
@@ -251,7 +251,7 @@
for dataset in datasets:
file_size = dataset.file_size
if remove_from_disk:
- errmsg = purge_dataset( dataset, m )
+ errmsg = purge_dataset( dataset, d, m )
if errmsg:
print errmsg
else:
@@ -280,23 +280,33 @@
print '# Freed disk space: ', disk_space, '\n'
print "Elapsed time: ", stop - start, "\n"
-def purge_dataset( dataset, m ):
+def purge_dataset( dataset, d, m ):
# Removes the file from disk and updates the database accordingly.
if dataset.deleted:
+ purgable = True
# Remove files from disk and update the database
try:
- dataset.purged = True
- dataset.file_size = 0
- dataset.flush()
- for shared_data in dataset.history_associations:
- # Check to see if another dataset is using this file. This happens when a user shares
- # their history with another user. In this case, a new record is created in the dataset
- # table for each dataset, but the dataset records point to the same data file on disk. So
- # if 1 of the 2 users deletes the dataset from their history but the other doesn't, we need
- # to keep the dataset on disk for the 2nd user.
- if not shared_data.deleted:
- break #only purge when not shared
- else:
+ # See if the dataset has been shared
+ if dataset.external_filename:
+ # This check handles the pre-history_dataset_association approach to sharing.
+ shared_data = d.filter( and_( d.table.c.external_filename==dataset.external_filename, d.table.c.deleted==False ) ).all()
+ if shared_data:
+ purgable = False
+ if purgable:
+ # This check handles the history_dataset_association approach to sharing.
+ for shared_data in dataset.history_associations:
+ # Check to see if another dataset is using this file. This happens when a user shares
+ # their history with another user. In this case, a new record is created in the dataset
+ # table for each dataset, but the dataset records point to the same data file on disk. So
+ # if 1 of the 2 users deletes the dataset from their history but the other doesn't, we need
+ # to keep the dataset on disk for the 2nd user.
+ if not shared_data.deleted:
+ purgable = False
+ break
+ if purgable:
+ dataset.purged = True
+ dataset.file_size = 0
+ dataset.flush()
# Remove dataset file from disk
os.unlink( dataset.file_name )
print "%s" % dataset.file_name
1
0
10 Nov '08
details: http://www.bx.psu.edu/hg/galaxy/rev/2d7f872ddaf8
changeset: 1615:2d7f872ddaf8
user: Greg Von Kuster <greg(a)bx.psu.edu>
date: Mon Nov 10 14:22:01 2008 -0500
description:
Add functioal test baseline support for the repeat construct, more work needed ( e.g., multiple repeat elements, refresh_on_change when the input to be refreshed is within a repeat construct ). Added functional tests for some tools that use this construct.
14 file(s) affected in this change:
lib/galaxy/tools/test.py
test-data/2.tabular
test-data/XY_Plot_1_out.pdf
test-data/build_ucsc_custom_track_out1.customtrack
test-data/cat_wrapper_out1.bed
test-data/customTrack_output.dat
test-data/eq-cat.dat
test-data/groupby_out1.dat
test/base/twilltestcase.py
test/functional/test_toolbox.py
tools/filters/catWrapper.xml
tools/plotting/xy_plot.xml
tools/stats/grouping.xml
tools/visualization/build_ucsc_custom_track.xml
diffs (1267 lines):
diff -r 99b4d554afd1 -r 2d7f872ddaf8 lib/galaxy/tools/test.py
--- a/lib/galaxy/tools/test.py Mon Nov 10 12:41:29 2008 -0500
+++ b/lib/galaxy/tools/test.py Mon Nov 10 14:22:01 2008 -0500
@@ -1,6 +1,7 @@
import new, sys
import galaxy.util
import parameters
+from parameters import basic
from parameters import grouping
from elementtree.ElementTree import XML
@@ -19,11 +20,10 @@
self.error = False
self.exception = None
def add_param( self, name, value, extra ):
- # FIXME: This needs to be updated for parameter grouping support
try:
if name not in self.tool.inputs:
for input_name, input_value in self.tool.inputs.items():
- if isinstance( input_value, grouping.Conditional ):
+ if isinstance( input_value, grouping.Conditional ) or isinstance( input_value, grouping.Repeat ):
self.__expand_grouping_for_data_input(name, value, extra, input_name, input_value)
elif isinstance( self.tool.inputs[name], parameters.DataToolParameter ):
self.required_files.append( ( value, extra ) )
@@ -31,13 +31,24 @@
self.inputs.append( ( name, value, extra ) )
def add_output( self, name, file ):
self.outputs.append( ( name, file ) )
- def __expand_grouping_for_data_input(self, name, value, extra, grouping_name, grouping_value):
- if name != grouping_value.test_param.name:
- for case in grouping_value.cases:
- for case_input_name, case_input_value in case.inputs.items():
- if case_input_name == name and isinstance( case_input_value, parameters.DataToolParameter ):
- self.required_files.append( ( value, extra ) )
- return True
- elif isinstance( case_input_value, grouping.Conditional ):
- self.__expand_grouping_for_data_input(name, value, extra, case_input_name, case_input_value)
-
+ def __expand_grouping_for_data_input( self, name, value, extra, grouping_name, grouping_value ):
+ # Currently handles grouping.Conditional and grouping.Repeat
+ if isinstance( grouping_value, grouping.Conditional ):
+ if name != grouping_value.test_param.name:
+ for case in grouping_value.cases:
+ for case_input_name, case_input_value in case.inputs.items():
+ if case_input_name == name and isinstance( case_input_value, basic.DataToolParameter ):
+ self.required_files.append( ( value, extra ) )
+ return True
+ elif isinstance( case_input_value, grouping.Conditional ):
+ self.__expand_grouping_for_data_input(name, value, extra, case_input_name, case_input_value)
+ elif isinstance( grouping_value, grouping.Repeat ):
+ # FIXME: grouping.Repeat can only handle 1 repeat param element since the param name
+ # is something like "input2" and the expanded page display is something like "queries_0|input2".
+ # The problem is that the only param name on the page is "input2", and adding more test input params
+ # with the same name ( "input2" ) is not yet supported in our test code ( the lat one added is the only
+ # one used ).
+ for input_name, input_value in grouping_value.inputs.items():
+ if input_name == name and isinstance( input_value, basic.DataToolParameter ):
+ self.required_files.append( ( value, extra ) )
+ return True
diff -r 99b4d554afd1 -r 2d7f872ddaf8 test-data/2.tabular
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/2.tabular Mon Nov 10 14:22:01 2008 -0500
@@ -0,0 +1,10 @@
+1 68 4.1
+2 71 4.6
+3 62 3.8
+4 75 4.4
+5 58 3.2
+6 60 3.1
+7 67 3.8
+8 68 4.1
+9 71 4.3
+10 69 3.7
diff -r 99b4d554afd1 -r 2d7f872ddaf8 test-data/XY_Plot_1_out.pdf
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/XY_Plot_1_out.pdf Mon Nov 10 14:22:01 2008 -0500
@@ -0,0 +1,171 @@
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diff -r 99b4d554afd1 -r 2d7f872ddaf8 test-data/build_ucsc_custom_track_out1.customtrack
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/build_ucsc_custom_track_out1.customtrack Mon Nov 10 14:22:01 2008 -0500
@@ -0,0 +1,8 @@
+track name="User Track" description="User Supplied Track (from Galaxy)" color=0,0,0 visibility=1
+chr2 31608 36385 NM_001077710 0 - 31608 36385 0 2 19,946, 0,3831,
+chr2 208154 246341 NM_015677 0 - 208810 232800 0 12 847,57,79,169,129,113,74,60,65,114,111,135, 0,6709,11811,12868,14946,16005,24643,25348,29383,31576,34850,38052,
+chr2 254871 262481 NM_001040649 0 + 254964 262258 0 3 136,74,445, 0,6994,7165,
+chr2 254895 268280 NM_004300 0 + 254964 267304 0 6 112,74,114,62,106,1054, 0,6970,7141,10244,12084,12331,
+chr2 254895 268280 NM_007099 0 + 254964 267304 0 6 112,74,114,62,106,1054, 0,6970,7296,10244,12084,12331,
+chr2 269928 277837 NM_001002919 0 - 270146 277835 0 6 221,65,81,54,22,53, 0,3182,6194,6361,7654,7856,
+
diff -r 99b4d554afd1 -r 2d7f872ddaf8 test-data/cat_wrapper_out1.bed
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/cat_wrapper_out1.bed Mon Nov 10 14:22:01 2008 -0500
@@ -0,0 +1,133 @@
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diff -r 99b4d554afd1 -r 2d7f872ddaf8 test-data/customTrack_output.dat
--- a/test-data/customTrack_output.dat Mon Nov 10 12:41:29 2008 -0500
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,359 +0,0 @@
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-chr2 161926 162002 Kanga1 233 -
-chr2 164118 164211 HAL1 264 +
-chr2 164330 164435 (CATATA)n 450 +
-chr2 164435 164679 AluSx 1559 -
-chr2 164780 164802 AT_rich 22 +
-chr2 164931 165118 MIRb 183 -
-chr2 167243 167542 AluSx 1867 +
-chr2 168414 168510 L1PB1 3181 +
-chr2 168510 168537 (TA)n 182 +
-chr2 168537 168572 (CA)n 324 +
-chr2 168572 168923 L1PB1 3181 +
-chr2 169914 170344 LTR35-int 677 +
-chr2 170349 170763 LTR35-int 1559 +
-chr2 170771 170917 L1PA4 1004 +
-chr2 170998 172290 LTR57-int 5968 +
-chr2 171342 173675 LOR1-int 6255 +
-chr2 173750 173972 LOR1-int 625 +
-chr2 174098 174198 LTR49-int 367 +
-chr2 174202 174392 LOR1-int 1108 +
-chr2 174395 174681 MER49 4056 +
-chr2 174681 175052 THE1C 2588 +
-chr2 175052 175497 MER49 4056 +
-chr2 175684 176055 LOR1-int 351 +
-chr2 176246 176698 LTR35 736 +
-chr2 176818 176841 AT_rich 23 +
-chr2 176990 177493 MLT1F2 1583 +
-chr2 177497 177522 (CAAAAA)n 225 +
-chr2 177538 177765 L1MC4 481 +
-chr2 177880 178397 LTR22C 2762 -
-chr2 178522 178630 AluJb 728 +
-chr2 178895 178998 L1M5 261 +
-chr2 179170 179198 AT_rich 21 +
-chr2 179978 180161 MER20 331 +
-chr2 180330 180509 L1MB2 1075 +
-chr2 180509 181898 LTR12C 8168 -
-chr2 181898 181924 L1MB2 1075 +
-chr2 181903 182185 L1MB2 1132 +
-chr2 182394 182433 (T)n 246 +
-chr2 182441 182653 AluSg 1644 -
-chr2 185331 185446 L1M4 246 -
-chr2 185937 186497 MER92B 900 -
-chr2 189807 189920 L2 242 +
-chr2 190069 190208 L2 229 -
-chr2 190610 190778 MIR 271 -
-chr2 190936 191064 MIRb 241 +
-chr2 192383 192531 L1MC4a 279 -
-chr2 192614 192967 MSTA 1342 +
-chr2 193615 193737 L1M4 416 -
-chr2 194139 194517 MSTA 2196 +
-chr2 195051 195659 MER4B 3688 +
-chr2 196994 197082 (GGAA)n 1047 +
-chr2 197082 197262 (GGGA)n 1431 +
-chr2 197262 197302 (GGAA)n 1047 +
-chr2 197302 197482 (GGGA)n 1347 +
-chr2 197482 197502 (GGAA)n 1047 +
-chr2 197502 197682 (GGGA)n 1368 +
-chr2 197682 197714 (GGAA)n 1047 +
-chr2 197714 197752 polypurine 219 +
-chr2 198076 198423 MLT1A0 1472 +
-chr2 199454 199677 L2 323 +
-chr2 199741 199990 L2 449 +
-chr2 201304 201337 AT_rich 26 +
-chr2 201543 201737 MIRb 344 -
-chr2 202374 203301 Tigger1 6366 -
-chr2 203546 203694 L1MC2 594 -
-chr2 204844 204905 Alu 426 +
-chr2 204907 205020 L1MD 245 -
-chr2 205310 205354 (CA)n 248 +
-chr2 205572 205611 AT_rich 25 +
-chr2 205757 206463 L1ME1 2227 -
-chr2 206478 206741 L1MA4 1087 -
-chr2 207057 207228 L1M3de 232 -
-chr2 207784 208051 L2 525 -
-chr2 208713 208734 AT_rich 21 +
-chr2 209284 209645 MLT1A0 1607 +
-chr2 210181 210214 (TAA)n 236 +
-chr2 211053 211149 MIR 223 -
-chr2 212441 212529 MER20 473 +
-chr2 213153 213232 MIRb 221 -
-chr2 215176 215279 Charlie2 435 -
-chr2 215309 215572 Charlie2 466 -
-chr2 215762 215892 L1MC4a 248 +
-chr2 216077 216489 L1MC4a 421 +
-chr2 217210 217559 L1MC4a 326 +
-chr2 217567 217588 AT_rich 21 +
-chr2 217889 217910 (TG)n 189 +
-chr2 219447 219753 AluYa5 2878 +
-chr2 220529 220769 AluSx 1445 -
-chr2 221199 221228 AT_rich 22 +
-chr2 221477 221524 (CATATA)n 240 +
-chr2 222442 222742 L1PA6 2387 -
-chr2 222746 222958 L1ME4a 234 +
-chr2 224460 224564 MIRb 253 -
-chr2 224875 225175 AluSq 2314 -
-chr2 226239 226463 MIR 272 +
-chr2 226463 226678 MIR 378 +
-chr2 227578 227831 L1MA4 1053 +
-chr2 228067 228259 LTR52 326 +
-chr2 228259 228303 (TG)n 396 +
-chr2 228303 228355 LTR52 326 +
-chr2 229207 229376 MER105 586 +
-chr2 229713 232723 L1M4b 6457 +
-chr2 232723 232751 (CAA)n 231 +
-chr2 232751 233606 L1M4 3745 +
-chr2 233633 233769 LTR16A1 309 +
-chr2 233780 233825 MIRb 246 +
-chr2 234214 234524 AluY 2373 +
-chr2 234527 234584 (GAAA)n 326 +
-chr2 234597 234715 MIR 217 -
-chr2 235457 235691 MIR 371 -
-chr2 235866 235892 (TAAAAA)n 201 +
-chr2 235913 236224 AluSq 2400 +
-chr2 236591 236642 GA-rich 202 +
-chr2 237758 237789 AT_rich 24 +
-chr2 241682 241737 MER5A 222 -
-chr2 242099 242222 MER5A 250 -
-chr2 243203 243830 MER41B 4374 +
-chr2 244057 244136 AT_rich 44 +
-chr2 244592 245160 MER4A 1940 +
-chr2 245335 245610 AluJo 1518 +
-chr2 246060 246409 L1ME2 2049 -
-chr2 246409 246714 AluSq 2369 +
-chr2 246714 247040 L1ME2 2049 -
-chr2 247032 247373 L1PREC2 1625 -
-chr2 247373 247786 MER57B 2701 +
-chr2 247790 248410 L1PREC2 3920 -
-chr2 248438 249129 L1MEc 575 -
-chr2 249353 249388 AT_rich 28 +
-chr2 249505 249889 L1MC 354 +
-chr2 253987 254010 GC_rich 23 +
-chr2 256504 257206 MER44C 3540 -
-chr2 257237 257619 L2 869 -
-chr2 257626 257758 MER105 414 -
-chr2 257758 258055 MER58B 701 -
-chr2 258065 258208 L2 435 -
-chr2 259635 259758 MER39 618 +
-chr2 259816 260040 MER39 688 +
-chr2 260145 260244 L2 235 +
-chr2 260590 260618 AT_rich 28 +
-chr2 260619 260678 MER21C 340 +
-chr2 260678 260979 MER77 442 +
-chr2 261078 261136 L2 193 +
-chr2 261228 261475 MER8 820 +
-chr2 261491 261567 Charlie9 244 -
-chr2 263033 263317 MSTD 409 -
-chr2 263469 263560 MER58A 287 +
-chr2 263885 264181 AluJo 1552 +
-chr2 265538 265751 MIR 405 -
-chr2 265969 265990 AT_rich 21 +
-chr2 266132 266443 L2 310 +
-chr2 268083 268107 AT_rich 24 +
-chr2 272348 272439 L2 215 +
-chr2 274262 274365 MER5A1 525 -
-chr2 274737 274812 MIR3 296 +
-chr2 275187 275231 MIR 229 +
-chr2 277448 277470 (A)n 198 +
-chr2 277738 277788 GC_rich 36 +
-
diff -r 99b4d554afd1 -r 2d7f872ddaf8 test-data/eq-cat.dat
--- a/test-data/eq-cat.dat Mon Nov 10 12:41:29 2008 -0500
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,133 +0,0 @@
-chr1 147962192 147962580 CCDS989.1_cds_0_0_chr1_147962193_r 0 -
-chr1 147984545 147984630 CCDS990.1_cds_0_0_chr1_147984546_f 0 +
-chr1 148078400 148078582 CCDS993.1_cds_0_0_chr1_148078401_r 0 -
-chr1 148185136 148185276 CCDS996.1_cds_0_0_chr1_148185137_f 0 +
-chr10 55251623 55253124 CCDS7248.1_cds_0_0_chr10_55251624_r 0 -
-chr11 116124407 116124501 CCDS8374.1_cds_0_0_chr11_116124408_r 0 -
-chr11 116206508 116206563 CCDS8377.1_cds_0_0_chr11_116206509_f 0 +
-chr11 116211733 116212337 CCDS8378.1_cds_0_0_chr11_116211734_r 0 -
-chr11 1812377 1812407 CCDS7726.1_cds_0_0_chr11_1812378_f 0 +
-chr12 38440094 38440321 CCDS8736.1_cds_0_0_chr12_38440095_r 0 -
-chr13 112381694 112381953 CCDS9526.1_cds_0_0_chr13_112381695_f 0 +
-chr14 98710240 98712285 CCDS9949.1_cds_0_0_chr14_98710241_r 0 -
-chr15 41486872 41487060 CCDS10096.1_cds_0_0_chr15_41486873_r 0 -
-chr15 41673708 41673857 CCDS10097.1_cds_0_0_chr15_41673709_f 0 +
-chr15 41679161 41679250 CCDS10098.1_cds_0_0_chr15_41679162_r 0 -
-chr15 41826029 41826196 CCDS10101.1_cds_0_0_chr15_41826030_f 0 +
-chr16 142908 143003 CCDS10397.1_cds_0_0_chr16_142909_f 0 +
-chr16 179963 180135 CCDS10401.1_cds_0_0_chr16_179964_r 0 -
-chr16 244413 244681 CCDS10402.1_cds_0_0_chr16_244414_f 0 +
-chr16 259268 259383 CCDS10403.1_cds_0_0_chr16_259269_r 0 -
-chr18 23786114 23786321 CCDS11891.1_cds_0_0_chr18_23786115_r 0 -
-chr18 59406881 59407046 CCDS11985.1_cds_0_0_chr18_59406882_f 0 +
-chr18 59455932 59456337 CCDS11986.1_cds_0_0_chr18_59455933_r 0 -
-chr18 59600586 59600754 CCDS11988.1_cds_0_0_chr18_59600587_f 0 +
-chr19 59068595 59069564 CCDS12866.1_cds_0_0_chr19_59068596_f 0 +
-chr19 59236026 59236146 CCDS12872.1_cds_0_0_chr19_59236027_r 0 -
-chr19 59297998 59298008 CCDS12877.1_cds_0_0_chr19_59297999_f 0 +
-chr19 59302168 59302288 CCDS12878.1_cds_0_0_chr19_59302169_r 0 -
-chr2 118288583 118288668 CCDS2120.1_cds_0_0_chr2_118288584_f 0 +
-chr2 118394148 118394202 CCDS2121.1_cds_0_0_chr2_118394149_r 0 -
-chr2 220190202 220190242 CCDS2441.1_cds_0_0_chr2_220190203_f 0 +
-chr2 220229609 220230869 CCDS2443.1_cds_0_0_chr2_220229610_r 0 -
-chr20 33330413 33330423 CCDS13249.1_cds_0_0_chr20_33330414_r 0 -
-chr20 33513606 33513792 CCDS13255.1_cds_0_0_chr20_33513607_f 0 +
-chr20 33579500 33579527 CCDS13256.1_cds_0_0_chr20_33579501_r 0 -
-chr20 33593260 33593348 CCDS13257.1_cds_0_0_chr20_33593261_f 0 +
-chr21 32707032 32707192 CCDS13614.1_cds_0_0_chr21_32707033_f 0 +
-chr21 32869641 32870022 CCDS13615.1_cds_0_0_chr21_32869642_r 0 -
-chr21 33321040 33322012 CCDS13620.1_cds_0_0_chr21_33321041_f 0 +
-chr21 33744994 33745040 CCDS13625.1_cds_0_0_chr21_33744995_r 0 -
-chr22 30120223 30120265 CCDS13897.1_cds_0_0_chr22_30120224_f 0 +
-chr22 30160419 30160661 CCDS13898.1_cds_0_0_chr22_30160420_r 0 -
-chr22 30665273 30665360 CCDS13901.1_cds_0_0_chr22_30665274_f 0 +
-chr22 30939054 30939266 CCDS13903.1_cds_0_0_chr22_30939055_r 0 -
-chr5 131424298 131424460 CCDS4149.1_cds_0_0_chr5_131424299_f 0 +
-chr5 131556601 131556672 CCDS4151.1_cds_0_0_chr5_131556602_r 0 -
-chr5 131621326 131621419 CCDS4152.1_cds_0_0_chr5_131621327_f 0 +
-chr5 131847541 131847666 CCDS4155.1_cds_0_0_chr5_131847542_r 0 -
-chr6 108299600 108299744 CCDS5061.1_cds_0_0_chr6_108299601_r 0 -
-chr6 108594662 108594687 CCDS5063.1_cds_0_0_chr6_108594663_f 0 +
-chr6 108640045 108640151 CCDS5064.1_cds_0_0_chr6_108640046_r 0 -
-chr6 108722976 108723115 CCDS5067.1_cds_0_0_chr6_108722977_f 0 +
-chr7 113660517 113660685 CCDS5760.1_cds_0_0_chr7_113660518_f 0 +
-chr7 116512159 116512389 CCDS5771.1_cds_0_0_chr7_116512160_r 0 -
-chr7 116714099 116714152 CCDS5773.1_cds_0_0_chr7_116714100_f 0 +
-chr7 116945541 116945787 CCDS5774.1_cds_0_0_chr7_116945542_r 0 -
-chr8 118881131 118881317 CCDS6324.1_cds_0_0_chr8_118881132_r 0 -
-chr9 128764156 128764189 CCDS6914.1_cds_0_0_chr9_128764157_f 0 +
-chr9 128787519 128789136 CCDS6915.1_cds_0_0_chr9_128787520_r 0 -
-chr9 128882427 128882523 CCDS6917.1_cds_0_0_chr9_128882428_f 0 +
-chr9 128937229 128937445 CCDS6919.1_cds_0_0_chr9_128937230_r 0 -
-chrX 122745047 122745924 CCDS14606.1_cds_0_0_chrX_122745048_f 0 +
-chrX 152648964 152649196 CCDS14733.1_cds_0_0_chrX_152648965_r 0 -
-chrX 152691446 152691471 CCDS14735.1_cds_0_0_chrX_152691447_f 0 +
-chrX 152694029 152694263 CCDS14736.1_cds_0_0_chrX_152694030_r 0 -
-chr1 147962192 147962580 NM_005997_cds_0_0_chr1_147962193_r 0 -
-chr1 147984545 147984630 BC007833_cds_0_0_chr1_147984546_f 0 +
-chr1 148078400 148078582 AJ011123_cds_0_0_chr1_148078401_r 0 -
-chr1 148185136 148185276 NM_002796_cds_0_0_chr1_148185137_f 0 +
-chr10 55251623 55253124 AY029205_cds_0_0_chr10_55251624_r 0 -
-chr11 116124407 116124501 AK057832_cds_0_0_chr11_116124408_r 0 -
-chr11 116206508 116206563 NM_000040_cds_1_0_chr11_116206509_f 0 +
-chr11 116211733 116212337 BC005380_cds_0_0_chr11_116211734_r 0 -
-chr11 130745911 130745993 AY358331_cds_0_0_chr11_130745912_f 0 +
-chr12 38440094 38440321 NM_052885_cds_0_0_chr12_38440095_r 0 -
-chr12 38905200 38905351 AY792511_cds_0_0_chr12_38905201_f 0 +
-chr13 112381694 112381953 NM_207440_cds_1_0_chr13_112381695_f 0 +
-chr13 29680676 29680875 NM_032116_cds_0_0_chr13_29680677_r 0 -
-chr14 98521864 98521922 U88895_cds_0_0_chr14_98521865_f 0 +
-chr14 98710240 98712285 NM_022898_cds_0_0_chr14_98710241_r 0 -
-chr15 41486872 41487060 BX537418_cds_0_0_chr15_41486873_r 0 -
-chr15 41673708 41673857 AK223365_cds_0_0_chr15_41673709_f 0 +
-chr15 41679161 41679250 NM_153700_cds_0_0_chr15_41679162_r 0 -
-chr15 41773540 41773689 AK223365_cds_0_0_chr15_41773541_f 0 +
-chr16 142908 143003 NM_005332_cds_0_0_chr16_142909_f 0 +
-chr16 179197 179339 BC065198_cds_0_0_chr16_179198_r 0 -
-chr16 244413 244681 AK057165_cds_2_0_chr16_244414_f 0 +
-chr16 259268 259383 AB016929_cds_0_0_chr16_259269_r 0 -
-chr18 23786114 23786321 NM_001792_cds_0_0_chr18_23786115_r 0 -
-chr18 59406881 59407046 NM_012397_cds_1_0_chr18_59406882_f 0 +
-chr18 59455932 59456337 AB046400_cds_0_0_chr18_59455933_r 0 -
-chr18 59528407 59528575 AY792326_cds_0_0_chr18_59528408_f 0 +
-chr19 59068595 59069564 BC013995_cds_1_0_chr19_59068596_f 0 +
-chr19 59236026 59236146 NM_198481_cds_0_0_chr19_59236027_r 0 -
-chr19 59297998 59298008 NM_004542_cds_0_0_chr19_59297999_f 0 +
-chr19 59318205 59318718 AK128544_cds_3_0_chr19_59318206_r 0 -
-chr2 118288583 118288668 NM_006773_cds_0_0_chr2_118288584_f 0 +
-chr2 118390395 118390500 BC005078_cds_0_0_chr2_118390396_r 0 -
-chr2 220108689 220109267 AY125465_cds_0_0_chr2_220108690_f 0 +
-chr2 220229609 220230869 NM_024536_cds_0_0_chr2_220229610_r 0 -
-chr20 33330413 33330423 NM_181466_cds_0_0_chr20_33330414_r 0 -
-chr20 33485370 33486123 BC085019_cds_1_0_chr20_33485371_f 0 +
-chr20 33488491 33489122 NM_000557_cds_1_0_chr20_33488492_r 0 -
-chr20 33513606 33513792 AF022655_cds_1_0_chr20_33513607_f 0 +
-chr21 32687402 32687588 NM_032910_cds_0_0_chr21_32687403_f 0 +
-chr21 32869641 32870022 NM_018277_cds_3_0_chr21_32869642_r 0 -
-chr21 33321040 33322012 NM_005806_cds_1_0_chr21_33321041_f 0 +
-chr21 33728358 33728724 AK129657_cds_0_0_chr21_33728359_r 0 -
-chr22 30120223 30120265 NM_004147_cds_0_0_chr22_30120224_f 0 +
-chr22 30160419 30160661 BC032941_cds_0_0_chr22_30160420_r 0 -
-chr22 30228824 30228916 NM_001007467_cds_1_0_chr22_30228825_f 0 +
-chr22 30340151 30340376 CR456540_cds_0_0_chr22_30340152_r 0 -
-chr5 131311206 131311254 AF099740_cds_11_0_chr5_131311207_r 0 -
-chr5 131424298 131424460 NM_000588_cds_0_0_chr5_131424299_f 0 +
-chr5 131556601 131556672 BC035813_cds_0_0_chr5_131556602_r 0 -
-chr5 131621326 131621419 BC003096_cds_0_0_chr5_131621327_f 0 +
-chr6 108299600 108299744 NM_007214_cds_0_0_chr6_108299601_r 0 -
-chr6 108594662 108594687 NM_003269_cds_0_0_chr6_108594663_f 0 +
-chr6 108640045 108640151 NM_003795_cds_0_0_chr6_108640046_r 0 -
-chr6 108722976 108723115 NM_145315_cds_0_0_chr6_108722977_f 0 +
-chr7 113660517 113660685 AF467257_cds_1_0_chr7_113660518_f 0 +
-chr7 116512159 116512389 NM_003391_cds_0_0_chr7_116512160_r 0 -
-chr7 116714099 116714152 NM_000492_cds_0_0_chr7_116714100_f 0 +
-chr7 116945541 116945787 AF377960_cds_0_0_chr7_116945542_r 0 -
-chr8 118881131 118881317 NM_000127_cds_0_0_chr8_118881132_r 0 -
-chr9 128764156 128764189 BC051300_cds_0_0_chr9_128764157_f 0 +
-chr9 128787519 128789136 NM_014908_cds_0_0_chr9_128787520_r 0 -
-chr9 128789552 128789584 NM_015354_cds_0_0_chr9_128789553_f 0 +
-chr9 128850516 128850624 AB058751_cds_0_0_chr9_128850517_r 0 -
-chrX 122745047 122745924 NM_001167_cds_1_0_chrX_122745048_f 0 +
-chrX 152648964 152649196 NM_000425_cds_0_0_chrX_152648965_r 0 -
-chrX 152691446 152691471 AF101728_cds_0_0_chrX_152691447_f 0 +
-chrX 152694029 152694263 BC052303_cds_0_0_chrX_152694030_r 0 -
diff -r 99b4d554afd1 -r 2d7f872ddaf8 test-data/groupby_out1.dat
--- a/test-data/groupby_out1.dat Mon Nov 10 12:41:29 2008 -0500
+++ b/test-data/groupby_out1.dat Mon Nov 10 14:22:01 2008 -0500
@@ -1,20 +1,21 @@
-chr1 148052568.25
-chr10 55251623.00
-chr11 87588756.25
-chr12 38440094.00
-chr13 112381694.00
-chr14 98710240.00
-chr15 41666442.50
-chr16 206638.00
-chr18 50562378.25
-chr19 59226196.75
-chr2 169275635.50
-chr20 33504194.75
-chr21 33160676.75
-chr22 30471242.25
-chr5 131612441.50
-chr6 108564320.75
-chr7 115958079.00
-chr8 118881131.00
-chr9 128842832.75
-chrX 145194871.50
\ No newline at end of file
+chr10 55251623.000000
+chr11 87588756.250000
+chr1 148052568.250000
+chr12 38440094.000000
+chr13 112381694.000000
+chr14 98710240.000000
+chr15 41666442.500000
+chr16 206638.000000
+chr18 50562378.250000
+chr19 59226196.750000
+chr20 33504194.750000
+chr2 118341365.500000
+chr21 33160676.750000
+chr2 220209905.500000
+chr22 30471242.250000
+chr5 131612441.500000
+chr6 108564320.750000
+chr7 115958079.000000
+chr8 118881131.000000
+chr9 128842832.750000
+chrX 145194871.500000
diff -r 99b4d554afd1 -r 2d7f872ddaf8 test/base/twilltestcase.py
--- a/test/base/twilltestcase.py Mon Nov 10 12:41:29 2008 -0500
+++ b/test/base/twilltestcase.py Mon Nov 10 14:22:01 2008 -0500
@@ -420,13 +420,16 @@
def submit_form( self, form_no=0, button="runtool_btn", **kwd ):
"""Populates and submits a form from the keyword arguments."""
+ # An HTMLForm contains a sequence of Controls. Supported control classes are:
+ # TextControl, FileControl, ListControl, RadioControl, CheckboxControl, SelectControl,
+ # SubmitControl, ImageControl
for i, f in enumerate( self.showforms() ):
if i == form_no:
break
- # An HTMLForm contains a sequence of Controls. Supported control classes are:
- # TextControl, FileControl, ListControl, RadioControl, CheckboxControl, SelectControl,
- # SubmitControl, ImageControl
+ # To help with debugging a tool, print out the form controls when the test fails
+ print "form '%s' contains the following controls ( note the values )" % f.name
for i, control in enumerate( f.controls ):
+ print "control %d: %s" % ( i, str( control ) )
try:
# Check for refresh_on_change attribute, submit a change if required
if 'refresh_on_change' in control.attrs.keys():
@@ -504,10 +507,15 @@
tc.code( 200 )
"""Functions associated with Galaxy tools"""
- def run_tool( self, tool_id, **kwd ):
+ def run_tool( self, tool_id, repeat_name=None, **kwd ):
tool_id = tool_id.replace(" ", "+")
"""Runs the tool 'tool_id' and passes it the key/values from the *kwd"""
self.visit_url( "%s/tool_runner/index?tool_id=%s" % (self.url, tool_id) )
+ if repeat_name is not None:
+ repeat_button = '%s_add' % repeat_name
+ # Submit the "repeat" form button to add an input)
+ tc.submit( repeat_button )
+ print "button '%s' clicked" % repeat_button
tc.find( 'runtool_btn' )
self.submit_form( **kwd )
@@ -516,14 +524,10 @@
tool_id = "ucsc_table_direct1"
track_string = urllib.urlencode( track_params )
galaxy_url = urllib.quote_plus( "%s/tool_runner/index?" % self.url )
-
self.visit_url( "http://genome.ucsc.edu/cgi-bin/hgTables?GALAXY_URL=%s&hgta_compressType=non…" % ( galaxy_url, tool_id, track_string ) )
tc.fv( "1","hgta_doTopSubmit", "get output" )
self.submit_form( button="get output" )#, **track_params )
-
-
tc.fv( "1","hgta_doGalaxyQuery", "Send query to Galaxy" )
-
self.submit_form( button="Send query to Galaxy" )#, **output_params ) #AssertionError: Attempting to set field 'fbQual' to value '['whole']' in form 'None' threw exception: no matching forms! control: <RadioControl(fbQual=[whole, upstreamAll, endAll])>
def wait( self, maxiter=20 ):
diff -r 99b4d554afd1 -r 2d7f872ddaf8 test/functional/test_toolbox.py
--- a/test/functional/test_toolbox.py Mon Nov 10 12:41:29 2008 -0500
+++ b/test/functional/test_toolbox.py Mon Nov 10 14:22:01 2008 -0500
@@ -1,5 +1,7 @@
import sys
import new
+from galaxy.tools.parameters import grouping
+from galaxy.tools.parameters import basic
from base.twilltestcase import TwillTestCase
toolbox = None
@@ -22,7 +24,7 @@
self.upload_file( fname, ftype=extra.get( 'ftype', 'auto' ), dbkey=extra.get( 'dbkey', 'hg17' ) )
print "Uploaded file: ", fname, ", ftype: ", extra.get( 'ftype', 'auto' ), ", extra: ", extra
# We need to handle the case where we've uploaded a valid compressed file since the upload
- # tool will have decompressed it on the fly.
+ # tool will have uncompressed it on the fly.
all_inputs = {}
for name, value, _ in self.testdef.inputs:
if value:
@@ -31,11 +33,16 @@
value = value.rstrip( end )
break
all_inputs[ name ] = value
-
+ # See if we have a grouping.Repeat element
+ repeat_name = None
+ for input_name, input_value in self.testdef.tool.inputs_by_page[0].items():
+ if isinstance( input_value, grouping.Repeat ):
+ repeat_name = input_name
+ break
# Do the first page
page_inputs = self.__expand_grouping(self.testdef.tool.inputs_by_page[0], all_inputs)
# Run the tool
- self.run_tool( self.testdef.tool.id, **page_inputs )
+ self.run_tool( self.testdef.tool.id, repeat_name=repeat_name, **page_inputs )
print "page_inputs (0)", page_inputs
# Do other pages if they exist
for i in range( 1, self.testdef.tool.npages ):
@@ -52,24 +59,48 @@
def shortDescription( self ):
return self.name
- def __expand_grouping(self, tool_inputs, declared_inputs ):
- from galaxy.tools.parameters import grouping
+ def __expand_grouping( self, tool_inputs, declared_inputs, repeat_index=0, repeat_sep='' ):
expanded_inputs = {}
for key, value in tool_inputs.items():
if isinstance(value, grouping.Conditional):
for i, case in enumerate(value.cases):
if declared_inputs[value.test_param.name] == case.value:
if isinstance(case.value, str):
- expanded_inputs["%s|%s" % (value.name, value.test_param.name)] = case.value.split(",")
+ if repeat_sep:
+ cond_sep = "%s%s" % ( repeat_sep, value.test_param.name )
+ else:
+ cond_sep = "%s|%s" % ( value.name, value.test_param.name )
+ expanded_inputs[ cond_sep ] = case.value.split( "," )
else:
- expanded_inputs["%s|%s" % (value.name, value.test_param.name)] = case.value
+ if repeat_sep:
+ cond_sep = "%s%s" % ( repeat_sep, value.test_param.name )
+ else:
+ cond_sep = "%s|%s" % ( value.name, value.test_param.name )
+ expanded_inputs[ cond_sep ] = case.value
for input_name, input_value in case.inputs.items():
if isinstance(input_value, grouping.Conditional):
- expanded_inputs.update(self.__expand_grouping({input_name:input_value}), declared_inputs)
+ expanded_inputs.update( self.__expand_grouping( { input_name:input_value }, declared_inputs, repeat_index=repeat_index, repeat_sep=repeat_sep ) )
elif isinstance(declared_inputs[input_name], str):
- expanded_inputs.update({"%s|%s" % (value.name, input_name):declared_inputs[input_name].split(",")})
+ if repeat_sep:
+ cond_sep = "%s%s" % ( repeat_sep, input_name )
+ else:
+ cond_sep = "%s|%s" % ( value.name, input_name )
+ expanded_inputs.update( { cond_sep : declared_inputs[ input_name ].split( "," ) } )
else:
- expanded_inputs.update({"%s|%s" % (value.name, input_name):declared_inputs[input_name]})
+ if repeat_sep:
+ cond_sep = "%s%s" % ( repeat_sep, input_name )
+ else:
+ cond_sep = "%s|%s" % ( value.name, input_name )
+ expanded_inputs.update( { cond_sep : declared_inputs[ input_name ] } )
+ elif isinstance( value, grouping.Repeat ):
+ for r_name, r_value in value.inputs.items():
+ repeat_sep = "%s_%d|%s" % ( value.name, repeat_index, r_name )
+ if isinstance( r_value, grouping.Conditional ):
+ cond_sep = repeat_sep + "|"
+ expanded_inputs.update( self.__expand_grouping( { r_name:r_value }, declared_inputs, repeat_index=repeat_index, repeat_sep=cond_sep ) )
+ else:
+ expanded_inputs.update( { repeat_sep : [ declared_inputs[ r_name ] ] } )
+ repeat_index += 1
elif isinstance(declared_inputs[value.name], str):
expanded_inputs[value.name] = declared_inputs[value.name].split(",")
else:
diff -r 99b4d554afd1 -r 2d7f872ddaf8 tools/filters/catWrapper.xml
--- a/tools/filters/catWrapper.xml Mon Nov 10 12:41:29 2008 -0500
+++ b/tools/filters/catWrapper.xml Mon Nov 10 14:22:01 2008 -0500
@@ -1,35 +1,39 @@
<tool id="cat1" name="Concatenate queries">
- <description>tail-to-head</description>
- <command interpreter="python">
- catWrapper.py
- $out_file1
- $input1
- #for $q in $queries
- ${q.input2}
- #end for
- </command>
- <inputs>
- <param name="input1" type="data" label="Concatenate Query"/>
- <repeat name="queries" title="Query">
- <param name="input2" type="data" label="Select" />
- </repeat>
-
- </inputs>
- <outputs>
- <data name="out_file1" format="input" metadata_source="input1"/>
- </outputs>
-
- <!--
- <tests>
- <test>
- <param name="input1" value="1.bed"/>
- <param name="input2" value="2.bed"/>
- <output name="out_file1" file="eq-cat.dat"/>
- </test>
- </tests>
- -->
-
- <help>
+ <description>tail-to-head</description>
+ <command interpreter="python">
+ catWrapper.py
+ $out_file1
+ $input1
+ #for $q in $queries
+ ${q.input2}
+ #end for
+ </command>
+ <inputs>
+ <param name="input1" type="data" label="Concatenate Query"/>
+ <repeat name="queries" title="Query">
+ <param name="input2" type="data" label="Select" />
+ </repeat>
+ </inputs>
+ <outputs>
+ <data name="out_file1" format="input" metadata_source="input1"/>
+ </outputs>
+ <tests>
+ <test>
+ <param name="input1" value="1.bed"/>
+ <param name="input2" value="2.bed"/>
+ <output name="out_file1" file="cat_wrapper_out1.bed"/>
+ </test>
+ <!--TODO: if possible, enhance the underlying test code to handle this test
+ the problem is multiple params with the same name "input2"
+ <test>
+ <param name="input1" value="1.bed"/>
+ <param name="input2" value="2.bed"/>
+ <param name="input2" value="3.bed"/>
+ <output name="out_file1" file="cat_wrapper_out2.bed"/>
+ </test>
+ -->
+ </tests>
+ <help>
.. class:: warningmark
@@ -71,5 +75,5 @@
chr2 100000030 200000955 P 0 +
chr2 100000015 200000999 Q 0 +
-</help>
+ </help>
</tool>
diff -r 99b4d554afd1 -r 2d7f872ddaf8 tools/plotting/xy_plot.xml
--- a/tools/plotting/xy_plot.xml Mon Nov 10 12:41:29 2008 -0500
+++ b/tools/plotting/xy_plot.xml Mon Nov 10 14:22:01 2008 -0500
@@ -94,7 +94,25 @@
<outputs>
<data format="pdf" name="out_file1" />
</outputs>
-
+ <!--
+ TODO: figure out how to change the submit_form() method to correctly handle refreshing the
+ form when the input for refresh is within a repeat construct ( like this tool )
+ <tests>
+ <test>
+ <param name="main" value="Example XY Plot"/>
+ <param name="xlab" value="Column 1"/>
+ <param name="ylab" value="Column 2"/>
+ <param name="input" value="2.tabular" ftype="tabular"/>
+ <param name="xcol" value="1"/>
+ <param name="ycol" value="2"/>
+ <param name="type" value="line"/>
+ <param name="lty" value="dashed"/>
+ <param name="col" value="2"/>
+ <param name="lwd" value="1.0"/>
+ <output name="out_file1" file="XY_Plot_1_out.pdf"/>
+ </test>
+ </tests>
+ -->
<help>
.. class:: infomark
diff -r 99b4d554afd1 -r 2d7f872ddaf8 tools/stats/grouping.xml
--- a/tools/stats/grouping.xml Mon Nov 10 12:41:29 2008 -0500
+++ b/tools/stats/grouping.xml Mon Nov 10 14:22:01 2008 -0500
@@ -40,17 +40,19 @@
</requirements>
<tests>
<!-- Test valid data -->
- <!-- Testing this tool will not be possible unless / until the twill team inplements an
- enhancement to allow for mouse clicks in the test cases...
+ <!-- TODO: fix this tool so that it works on various platforms
+ The following test should then work...
<test>
<param name="input1" value="1.bed"/>
<param name="groupcol" value="1"/>
- <param name="operations" value="mean 2"/>
+ <param name="optype" value="mean"/>
+ <param name="opcol" value="2"/>
+ <param name="opround" value="no"/>
<output name="out_file1" file="groupby_out1.dat"/>
</test>
-->
<!-- Test data with an invalid value in a column -->
- <!--
+ <!-- TODO: fix this test...
<test>
<param name="input1" value="1.tabular"/>
<param name="groupcol" value="1"/>
diff -r 99b4d554afd1 -r 2d7f872ddaf8 tools/visualization/build_ucsc_custom_track.xml
--- a/tools/visualization/build_ucsc_custom_track.xml Mon Nov 10 12:41:29 2008 -0500
+++ b/tools/visualization/build_ucsc_custom_track.xml Mon Nov 10 14:22:01 2008 -0500
@@ -52,22 +52,17 @@
<outputs>
<data format="customtrack" name="out_file1" />
</outputs>
- <!--
- <tests>
- <test>
- <param name="primary" value="customTrack1.bed" />
- <param name="primary_color" value="0-0-0" />
- <param name="primary_visib" value="1" />
- <param name="primary_name" value="customTrack1.bed" />
- <param name="newdata" value="customTrack2.bed" />
- <param name="status" value="1" />
- <param name="Color" value="255-0-0" />
- <param name="Visibility" value="2" />
- <param name="other_names" value="customTrack2.bed" />
- <output name="out_file1" file="customTrack_output.dat" />
- </test>
+ <tests>
+ <!--TODO: add a 2nd test here that includes 2 tracks -->
+ <test>
+ <param name="input" value="customTrack1.bed" />
+ <param name="name" value="User Track" />
+ <param name="description" value="User Supplied Track (from Galaxy)" />
+ <param name="color" value="0-0-0" />
+ <param name="visibility" value="1" />
+ <output name="out_file1" file="build_ucsc_custom_track_out1.customtrack" />
+ </test>
</tests>
- -->
<help>
.. class:: infomark
1
0
10 Nov '08
details: http://www.bx.psu.edu/hg/galaxy/rev/99b4d554afd1
changeset: 1614:99b4d554afd1
user: Nate Coraor <nate(a)bx.psu.edu>
date: Mon Nov 10 12:41:29 2008 -0500
description:
A bug in recent job runner changes... nothing was ever actually sent to the job stop queue.
1 file(s) affected in this change:
lib/galaxy/web/controllers/root.py
diffs (11 lines):
diff -r 342e8ebf1305 -r 99b4d554afd1 lib/galaxy/web/controllers/root.py
--- a/lib/galaxy/web/controllers/root.py Fri Nov 07 16:27:07 2008 -0500
+++ b/lib/galaxy/web/controllers/root.py Mon Nov 10 12:41:29 2008 -0500
@@ -288,6 +288,7 @@
# Are *all* of the job's other output datasets deleted?
if job.check_if_output_datasets_deleted():
job.mark_deleted()
+ self.app.job_manager.job_stop_queue.put( job )
self.app.model.flush()
@web.expose
1
0
10 Nov '08
details: http://www.bx.psu.edu/hg/galaxy/rev/3385fbd2af47
changeset: 1612:3385fbd2af47
user: Dan Blankenberg <dan(a)bx.psu.edu>
date: Fri Nov 07 15:39:47 2008 -0500
description:
Fixes for testing framework to allow it to be run against an external server.
2 file(s) affected in this change:
test/base/twilltestcase.py
test/functional/__init__.py
diffs (63 lines):
diff -r c7bc4de93fbb -r 3385fbd2af47 test/base/twilltestcase.py
--- a/test/base/twilltestcase.py Thu Nov 06 09:44:19 2008 -0500
+++ b/test/base/twilltestcase.py Fri Nov 07 15:39:47 2008 -0500
@@ -7,6 +7,7 @@
import twill
import twill.commands as tc
from twill.other_packages._mechanize_dist import ClientForm
+pkg_resources.require( "elementtree" )
from elementtree import ElementTree
buffer = StringIO.StringIO()
@@ -255,7 +256,7 @@
self.assertTrue( data_list )
if hid is None: # take last hid
elem = data_list[-1]
- hid = elem.get('hid')
+ hid = int( elem.get('hid') )
self.assertTrue( hid )
self.visit_page( 'edit?hid=%d' % hid )
if form_no == 0:
@@ -510,6 +511,21 @@
tc.find( 'runtool_btn' )
self.submit_form( **kwd )
+ def run_ucsc_main( self, track_params, output_params ):
+ """Gets Data From UCSC"""
+ tool_id = "ucsc_table_direct1"
+ track_string = urllib.urlencode( track_params )
+ galaxy_url = urllib.quote_plus( "%s/tool_runner/index?" % self.url )
+
+ self.visit_url( "http://genome.ucsc.edu/cgi-bin/hgTables?GALAXY_URL=%s&hgta_compressType=non…" % ( galaxy_url, tool_id, track_string ) )
+ tc.fv( "1","hgta_doTopSubmit", "get output" )
+ self.submit_form( button="get output" )#, **track_params )
+
+
+ tc.fv( "1","hgta_doGalaxyQuery", "Send query to Galaxy" )
+
+ self.submit_form( button="Send query to Galaxy" )#, **output_params ) #AssertionError: Attempting to set field 'fbQual' to value '['whole']' in form 'None' threw exception: no matching forms! control: <RadioControl(fbQual=[whole, upstreamAll, endAll])>
+
def wait( self, maxiter=20 ):
"""Waits for the tools to finish"""
count = 0
diff -r c7bc4de93fbb -r 3385fbd2af47 test/functional/__init__.py
--- a/test/functional/__init__.py Thu Nov 06 09:44:19 2008 -0500
+++ b/test/functional/__init__.py Fri Nov 07 15:39:47 2008 -0500
@@ -16,6 +16,7 @@
from galaxy.web import buildapp
import test_toolbox
from galaxy import tools
+from galaxy.util import bunch
log = logging.getLogger( __name__ )
@@ -92,7 +93,8 @@
else:
# FIXME: This doesn't work at all now that toolbox requires an 'app' instance
# (to get at datatypes, might just pass a datatype registry directly)
- test_toolbox.toolbox = tools.ToolBox( 'tool_conf.xml.test', 'tools' )
+ my_app = bunch.Bunch( datatypes_registry = galaxy.datatypes.registry.Registry() )
+ test_toolbox.toolbox = tools.ToolBox( 'tool_conf.xml.test', 'tools', my_app )
# Test if the server is up
conn = httplib.HTTPConnection( galaxy_test_host, galaxy_test_port )
1
0
10 Nov '08
details: http://www.bx.psu.edu/hg/galaxy/rev/342e8ebf1305
changeset: 1613:342e8ebf1305
user: Dan Blankenberg <dan(a)bx.psu.edu>
date: Fri Nov 07 16:27:07 2008 -0500
description:
Add a test for the sample analysis of retrieving genes flanked by DNAse HSS.
5 file(s) affected in this change:
test-data/DNAseHSS.dat
test-data/filteredJoinedFlanksDNAse.dat
test-data/hg17chr22KnownGenes.dat
test-data/knownGeneUpstream500Flanks.dat
test/functional/test_DNAse_flanked_genes.py
diffs (truncated from 3955 to 3000 lines):
diff -r 3385fbd2af47 -r 342e8ebf1305 test-data/DNAseHSS.dat
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/DNAseHSS.dat Fri Nov 07 16:27:07 2008 -0500
@@ -0,0 +1,1927 @@
+chr22 15456460 15456683 chr22.1 362
+chr22 15458364 15459404 chr22.2 504
+chr22 15815475 15815875 chr22.3 400
+chr22 15825100 15825400 chr22.4 392
+chr22 15842616 15842716 chr22.5 324
+chr22 15842942 15843082 chr22.6 391
+chr22 15930393 15930681 chr22.7 461
+chr22 15939982 15943768 chr22.8 733
+chr22 15953744 15954492 chr22.9 491
+chr22 15962252 15962574 chr22.10 374
+chr22 15973029 15973901 chr22.11 423
+chr22 15975816 15976065 chr22.12 422
+chr22 15976121 15976201 chr22.13 452
+chr22 15976381 15976394 chr22.14 444
+chr22 16013705 16013885 chr22.15 450
+chr22 16013915 16015621 chr22.16 738
+chr22 16026660 16027656 chr22.17 634
+chr22 16072331 16072502 chr22.18 450
+chr22 16072634 16072981 chr22.19 480
+chr22 16074512 16075141 chr22.20 564
+chr22 16076677 16076793 chr22.21 400
+chr22 16092232 16093072 chr22.22 535
+chr22 16112922 16114222 chr22.23 623
+chr22 16123515 16123655 chr22.24 353
+chr22 16123982 16124182 chr22.25 374
+chr22 16135896 16135934 chr22.26 356
+chr22 16135938 16136134 chr22.27 365
+chr22 16137004 16137183 chr22.28 419
+chr22 16159027 16159069 chr22.29 303
+chr22 16159320 16159852 chr22.30 516
+chr22 16160037 16160317 chr22.31 421
+chr22 16160505 16161102 chr22.32 427
+chr22 16224127 16224777 chr22.33 428
+chr22 16331688 16331928 chr22.34 359
+chr22 16355092 16355756 chr22.35 519
+chr22 16427660 16427974 chr22.36 393
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+chr22 16485520 16486465 chr22.38 737
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+chr22 16495212 16497144 chr22.40 725
+chr22 16535713 16535723 chr22.41 316
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+chr22 17471428 17472268 chr22.92 579
+chr22 17480580 17480594 chr22.93 366
+chr22 17481759 17482262 chr22.94 427
+chr22 17483372 17485317 chr22.95 919
+chr22 17506030 17507178 chr22.96 776
+chr22 17511616 17511950 chr22.97 465
+chr22 17533019 17533068 chr22.98 453
+chr22 17533079 17534240 chr22.99 688
+chr22 17539938 17541938 chr22.100 646
+chr22 17621742 17621961 chr22.101 418
+chr22 17634964 17635544 chr22.102 392
+chr22 17652823 17654497 chr22.103 781
+chr22 17654513 17655354 chr22.104 486
+chr22 17781893 17782125 chr22.105 412
+chr22 17792116 17792866 chr22.106 437
+chr22 17793507 17795048 chr22.107 755
+chr22 17795296 17795376 chr22.108 329
+chr22 17809021 17810497 chr22.109 788
+chr22 17840293 17840444 chr22.110 348
+chr22 17840513 17842503 chr22.111 806
+chr22 17935857 17936457 chr22.112 416
+chr22 17939142 17939189 chr22.113 331
+chr22 17942087 17942109 chr22.114 320
+chr22 17942387 17942587 chr22.115 399
+chr22 17942588 17942696 chr22.116 317
+chr22 17958957 17960617 chr22.117 683
+chr22 17969303 17969308 chr22.118 322
+chr22 17969355 17969887 chr22.119 488
+chr22 17973094 17973210 chr22.120 360
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diff -r 3385fbd2af47 -r 342e8ebf1305 test-data/filteredJoinedFlanksDNAse.dat
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/filteredJoinedFlanksDNAse.dat Fri Nov 07 16:27:07 2008 -0500
@@ -0,0 +1,1 @@
+chr22 20414625 20415125 NM_013313 0 - 20379971 20389587 0 5 3680,109,44,281,168, 0,5831,6300,13089,38076, chr22 20413245 20415213 chr22.303 1000
diff -r 3385fbd2af47 -r 342e8ebf1305 test-data/hg17chr22KnownGenes.dat
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/hg17chr22KnownGenes.dat Fri Nov 07 16:27:07 2008 -0500
@@ -0,0 +1,964 @@
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+chr22 14823377 14824358 NM_001005239 0 - 14823377 14824358 0 1 981, 0,
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+chr22 15446203 15448254 NM_014406 0 - 15446320 15447994 0 1 2051, 0,
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+chr22 15638923 15677136 BC045548 0 - 15639062 15663517 0 4 930,254,345,86, 0,16291,24259,38127,
+chr22 15940411 15965941 NM_014339 0 + 15940535 15965264 0 13 262,25,147,113,127,48,164,84,85,12,102,42,2191, 0,12094,12829,13807,15387,17028,17171,18526,19758,20623,20885,22759,23339,
+chr22 15971743 15976697 NM_031890 0 - 15974834 15976571 0 1 4954, 0,
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+chr22 15992964 16020731 NM_017829 0 - 15993464 16020688 0 8 837,189,175,34,94,113,204,79, 0,1029,3538,5577,7503,10927,12021,27688,
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+chr22 16042774 16053967 AK130623 0 - 16053157 16053556 0 2 33,1379, 0,9814,
+chr22 16331181 16407586 AL832377 0 + 16353079 16407094 0 18 97,184,140,105,50,170,84,154,130,38,92,127,389,129,847,1417,112,498, 0,19807,21814,23035,25486,27251,34217,46516,60164,61581,61701,62054,63473,64900,65218,71210,75088,75907,
+chr22 16331181 16408399 AF336133 0 + 16353079 16407094 0 18 97,184,140,105,50,170,84,210,134,38,92,127,389,129,847,1417,112,1311, 0,19807,21814,23035,25486,27251,34217,46516,60160,61581,61701,62054,63473,64900,65218,71210,75088,75907,
+chr22 16403242 16408387 AK091754 0 + 16403257 16404572 0 4 566,167,112,1299, 0,1239,3027,3846,
+chr22 16417736 16448201 NM_031481 0 + 16437264 16447556 0 11 231,63,220,123,56,91,119,166,155,76,787, 0,6806,19328,20620,20941,22146,22999,26719,27508,29173,29678,
+chr22 16449478 16486089 NM_001696 0 - 16449993 16485955 0 9 578,88,95,69,90,67,110,66,167, 0,2370,6035,7868,8933,20653,21052,27302,36444,
+chr22 16496038 16586541 NM_015367 0 + 16513031 16584854 0 7 168,171,108,157,70,144,2545, 0,16943,44495,50267,57422,63524,87958,
+chr22 16496091 16561053 CR608603 0 + 16513031 16559712 0 6 115,171,108,157,70,1491, 0,16890,44442,50214,57369,63471,
+chr22 16496130 16587937 AL831982 0 + 16513031 16584126 0 5 76,171,108,157,3941, 0,16851,44403,50175,87866,
+chr22 16496144 16586023 BC007658 0 + 16559592 16584854 0 7 62,171,108,157,70,144,2027, 0,16837,44389,50161,57316,63418,87852,
+chr22 16513031 16584854 AF539453 0 + 16513031 16542014 0 5 121,108,98,157,858, 0,27502,28897,33274,70965,
+chr22 16546303 16586541 AF146568 0 + 16546373 16584854 0 4 159,70,144,2545, 0,7157,13259,37693,
+chr22 16591459 16631812 NM_001196 0 - 16592899 16607436 0 6 1452,213,140,211,70,112, 0,3877,5209,9663,15965,40241,
+chr22 16591459 16631333 NM_197966 0 - 16592899 16631009 0 6 1452,213,140,211,70,404, 0,3877,5209,9663,15965,39470,
+chr22 16592818 16631732 AY005151 0 - 16596712 16607436 0 7 93,213,140,95,211,70,32, 0,2518,3850,4583,8304,14606,38882,
+chr22 16634641 16636801 AK097861 0 + 16634856 16635369 0 1 2160, 0,
+chr22 16698994 16764147 CR456364 0 - 16699095 16764132 0 19 343,88,89,187,174,63,113,197,148,97,127,116,258,101,156,102,117,208,279, 0,23224,24249,30162,44203,45495,45648,47359,49810,52133,53609,54571,55049,57773,59167,60203,60956,62957,64874,
+chr22 16719761 16721799 AK124853 0 - 16720930 16721356 0 1 2038, 0,
+chr22 16816353 16818604 AK094477 0 - 16817923 16818349 0 1 2251, 0,
+chr22 16886704 16895288 AK123935 0 + 16894400 16894982 0 2 170,2209, 0,6375,
+chr22 16934505 16936204 AK000085 0 - 16935437 16936076 0 1 1699, 0,
+chr22 16935242 16948790 NM_017929 0 + 16935696 16945395 0 7 125,311,141,296,147,571,1484, 0,373,1951,5514,7189,10049,12064,
+chr22 16968112 16989052 NM_018943 0 + 16968185 16988457 0 5 76,223,149,681,889, 0,10687,13364,15562,20051,
+chr22 17007311 17034714 NM_017414 0 + 17014984 17034138 0 11 232,263,97,146,80,147,96,168,132,50,622, 0,7567,10181,11799,17264,17899,19853,20762,23159,23802,26781,
+chr22 17035358 17255070 AK129567 0 - 17041364 17254957 0 9 428,957,34,62,66,87,25,59,141, 0,5072,202587,203086,205147,210121,213154,213647,219571,
+chr22 17095980 17119961 AK129567 0 + 17096093 17113958 0 9 141,59,25,87,66,62,34,957,428, 0,2118,2645,5616,10596,12660,13187,17955,23553,
+chr22 17219338 17222030 BC090873 0 + 17220451 17220760 0 2 218,1582, 0,1110,
+chr22 17268345 17274146 NM_005675 0 + 17268441 17273756 0 5 206,161,101,141,540, 0,286,3893,4609,5261,
+chr22 17268396 17274151 BC047039 0 + 17272990 17273756 0 5 155,161,101,141,545, 0,235,3842,4558,5210,
+chr22 17274848 17298620 NM_016335 0 - 17275241 17298354 0 15 581,89,99,176,147,93,82,80,117,65,150,35,209,313,164, 0,656,4108,5534,6669,6924,8560,9543,10035,10333,12269,12906,18208,23233,23608,
+chr22 17398354 17484458 NM_005137 0 - 17400931 17484273 0 10 2834,237,153,204,177,77,220,126,123,264, 0,4770,5519,12152,20698,26914,28560,31812,53080,85840,
+chr22 17398354 17484474 CR936871 0 - 17422828 17484273 0 11 2834,237,153,204,177,390,77,211,126,123,280, 0,4770,5519,12152,20698,24278,26914,28560,31812,53080,85840,
+chr22 17492346 17495367 BC069275 0 - 17493484 17494504 0 1 3021, 0,
+chr22 17493343 17494690 NM_053006 0 + 17493466 17494543 0 1 1347, 0,
+chr22 17496005 17506716 NM_022719 0 - 17496262 17506707 0 10 537,116,110,103,134,118,170,96,169,144, 0,1121,3384,4276,5220,5673,5916,8599,8787,10567,
+chr22 17511057 17512350 NM_005315 0 - 17511057 17512350 0 3 105,254,259, 0,672,1034,
+chr22 17537648 17540839 NM_005984 0 - 17538196 17540740 0 9 663,74,116,105,85,139,100,108,193, 0,839,996,1264,1538,2145,2360,2551,2998,
+chr22 17541542 17653751 X95486 0 - 17542285 17653718 0 33 494,40,76,222,171,111,132,150,168,108,164,159,193,184,146,123,235,143,126,164,181,165,138,123,153,201,198,174,114,162,269,208,75, 0,723,1255,3914,8081,8504,11827,16788,17011,20256,21851,28674,29443,30847,36632,40405,41911,42485,43218,44425,45987,46753,50372,53010,53700,53956,55043,56230,59809,63309,74493,96157,112134,
+chr22 17541542 17653762 U60803 0 - 17542285 17653718 0 32 494,40,76,222,111,132,150,168,108,164,159,193,184,146,123,235,143,126,164,181,165,138,123,153,201,198,174,114,162,269,208,86, 0,723,1255,3914,8504,11827,16788,17011,20256,21851,28674,29443,30847,36632,40405,41911,42485,43218,44425,45987,46753,50372,53010,53700,53956,55043,56230,59809,63309,74493,96157,112134,
+chr22 17692777 17793773 NM_003325 0 - 17693516 17793553 0 25 856,89,164,123,106,59,162,149,105,205,162,198,86,216,106,71,114,168,161,96,95,91,111,63,257, 0,20657,22655,23295,25059,25529,26189,28635,30536,31026,44930,47168,52919,54820,57010,57783,61400,63641,66086,67291,75085,76483,77782,80015,100739,
+chr22 17692777 17793773 X75296 0 - 17693516 17770638 0 21 856,89,164,123,106,59,162,198,86,216,106,71,114,168,161,96,95,91,111,63,257, 0,20657,22655,23295,25059,25529,44930,47168,52919,54820,57010,57783,61400,63641,66086,67291,75085,76483,77782,80015,100739,
+chr22 17692777 17793773 X75296 0 - 17693516 17793553 0 21 856,89,164,123,106,59,162,198,86,216,106,71,114,168,161,96,95,91,111,63,257, 0,20657,22655,23295,25059,25529,44930,47168,52919,54820,57010,57783,61400,63641,66086,67291,75085,76483,77782,80015,100739,
+chr22 17693125 17772856 X77633 0 - 17693516 17770638 0 24 508,89,164,123,106,59,162,149,105,205,162,198,86,216,106,71,114,168,161,96,95,91,111,64, 0,20309,22307,22947,24711,25181,25841,28287,30188,30678,44582,46820,52571,54472,56662,57435,61052,63293,65738,66943,74737,76135,77434,79667,
+chr22 17794589 17798148 NM_003776 0 + 17794631 17798039 0 4 95,84,159,434, 0,752,2223,3125,
+chr22 17805452 17809774 NM_173793 0 - 17806341 17809765 0 3 1015,168,33, 0,4002,4289,
+chr22 17812394 17841280 NM_005659 0 - 17812746 17841162 0 12 427,82,89,48,66,69,73,131,122,33,133,121, 0,4431,5362,6269,6535,7753,14884,17555,21369,24750,25152,28765,
+chr22 17841969 17882688 NM_003504 0 + 17842045 17880985 0 19 127,60,93,138,144,56,49,62,51,120,132,99,162,139,84,119,77,66,131, 0,265,1060,2797,3969,14434,16088,17493,19208,25469,27493,27873,28637,34856,35072,36634,36924,38951,40588,
+chr22 17842003 17882649 CR604288 0 + 17842045 17880985 0 19 93,60,93,138,144,56,49,62,51,120,132,99,162,139,84,119,80,66,92, 0,231,1026,2763,3935,14400,16054,17459,19174,25435,27459,27839,28603,34822,35038,36600,36887,38917,40554,
+chr22 17842015 17882677 AJ223728 0 + 17842045 17880985 0 19 81,60,93,140,142,56,49,62,51,120,132,99,162,139,84,119,77,66,120, 0,219,1014,2751,3925,14388,16042,17447,19162,25423,27447,27827,28591,34810,35026,36588,36878,38905,40542,
+chr22 17885103 17887414 NM_003277 0 - 17885675 17886332 0 2 1516,183, 0,2128,
+chr22 18076540 18085396 NM_002688 0 + 18076665 18084561 0 12 168,11,97,87,124,135,118,102,97,136,103,892, 0,317,5138,5342,5651,5856,6085,6304,7176,7358,7773,7964,
+chr22 18076620 18085396 Y11593 0 + 18076665 18084561 0 12 88,11,94,90,124,135,118,102,97,136,103,892, 0,237,5058,5259,5571,5776,6005,6224,7096,7278,7693,7884,
+chr22 18080534 18085396 NM_001009939 0 + 18080814 18084388 0 11 361,97,87,124,135,118,102,97,125,103,892, 0,1144,1348,1657,1862,2091,2310,3182,3375,3779,3970,
+chr22 18085619 18086848 NM_000407 0 + 18085646 18086541 0 2 37,918, 0,311,
+chr22 18118779 18129409 NM_080647 0 + 18121720 18128944 0 9 43,120,376,102,172,156,68,101,944, 0,2855,4202,6538,7452,8255,9055,9199,9686,
+chr22 18118779 18141620 NM_080646 0 + 18121720 18141484 0 9 43,120,376,102,172,156,68,101,324, 0,2855,4202,6538,7452,8255,9055,9199,22517,
+chr22 18118779 18145664 NM_005992 0 + 18121720 18145099 0 10 43,120,376,102,172,156,68,101,120,274, 0,2855,4202,6538,7452,8255,9055,9199,26210,26611,
+chr22 18150493 18217016 NM_053004 0 - 18150785 18183432 0 8 544,216,99,163,126,148,97,120, 0,13584,18242,23868,32181,32811,66026,66403,
+chr22 18150494 18217016 AF238328 0 - 18150694 18183432 0 8 209,114,99,163,126,148,97,120, 0,13685,18241,23867,32180,32810,66025,66402,
+chr22 18208222 18216893 NM_024627 0 - 18213243 18214338 0 3 6341,97,157, 0,8297,8514,
+chr22 18212311 18214356 BC011679 0 - 18213243 18214155 0 1 2045, 0,
+chr22 18237593 18294630 NM_145748 0 - 18239181 18294446 0 18 291,195,98,72,93,96,137,175,92,20,71,63,79,75,145,57,69,197, 0,1523,2573,2849,4662,5105,7808,19890,22522,23532,35860,39697,40248,42626,43343,44026,55513,56840,
+chr22 18237594 18300256 NM_145747 0 - 18239181 18281022 0 18 290,195,98,72,93,96,137,175,92,20,71,63,79,75,145,57,69,197, 0,1522,2572,2848,4661,5104,7807,19889,22521,23531,35859,39696,40247,42625,43342,44025,55512,62465,
+chr22 18237599 18304069 NM_006440 0 - 18239181 18303880 0 18 285,195,98,72,93,96,137,175,92,20,71,63,79,75,145,57,69,292, 0,1517,2567,2843,4656,5099,7802,19884,22516,23526,35854,39691,40242,42620,43337,44020,55507,66178,
+chr22 18237623 18303880 AF201385 0 - 18239187 18303880 0 17 1688,98,72,93,96,137,175,92,20,71,63,79,75,145,57,66,103, 0,2543,2819,4632,5075,7778,19860,22492,23502,35830,39667,40218,42596,43313,43996,55483,66154,
+chr22 18256336 18295603 BX957216 0 - 18257209 18295517 0 12 941,175,92,20,71,63,79,75,145,57,69,93, 0,1147,3779,4789,17117,20954,21505,23883,24600,25283,36770,39174,
+chr22 18303862 18331084 NM_000754 0 + 18324603 18330813 0 6 112,91,289,194,132,472, 0,19413,20741,21780,22382,26750,
+chr22 18303888 18331018 BC000419 0 + 18324870 18330813 0 6 86,91,289,194,132,406, 0,19387,20715,21754,22356,26724,
+chr22 18324623 18331084 NM_007310 0 + 18324753 18330813 0 4 269,194,132,472, 0,1019,1621,5989,
+chr22 18331972 18378863 NM_001670 0 - 18333304 18352871 0 20 848,120,86,54,91,112,199,151,128,72,18,172,118,184,500,527,159,228,54,198, 0,1320,1990,2462,2841,3029,3223,3747,4216,5790,6810,7519,8062,9001,9847,11315,12037,20689,40559,46693,
+chr22 18331974 18341288 AK092664 0 - 18332793 18341119 0 12 846,86,54,91,112,199,151,128,72,172,118,315, 0,1988,2460,2839,3027,3221,3745,4214,5788,7517,8060,8999,
+chr22 18383184 18428001 NM_152906 0 + 18398875 18426739 0 9 139,95,89,120,115,71,154,105,1383, 0,15652,22247,31357,32329,34835,40422,42230,43434,
+chr22 18383190 18429358 CR627452 0 + 18398875 18415836 0 7 21,95,89,120,2805,3366,1845, 0,15646,22241,31351,32323,35410,44323,
+chr22 18383190 18428002 AK092484 0 + 18398875 18426739 0 7 21,95,89,120,154,105,1384, 0,15646,22241,31351,40416,42224,43428,
+chr22 18398994 18427436 AK057461 0 + 18399100 18426739 0 9 177,89,120,115,71,110,20,105,818, 0,6437,15547,16519,19025,24612,24746,26420,27624,
+chr22 18442387 18473952 NM_022720 0 + 18448040 18472185 0 14 73,997,160,143,283,198,102,99,83,101,107,128,114,1851, 0,5376,6851,9358,9665,11124,11558,12498,14402,25866,26281,26960,28579,29714,
+chr22 18447898 18473947 BC078147 0 + 18448040 18472185 0 12 862,160,143,283,198,102,83,101,107,128,114,1846, 0,1340,3847,4154,5613,6047,8891,20355,20770,21449,23068,24203,
+chr22 18473951 18479322 NM_022727 0 - 18474639 18478983 0 12 920,97,117,76,123,112,116,115,182,109,575,363, 0,1036,1243,1557,1811,2699,2886,3090,3391,3797,4163,5008,
+chr22 18474380 18479322 AK057029 0 - 18474850 18478983 0 12 513,97,117,76,123,112,116,115,182,109,575,363, 0,607,814,1128,1382,2270,2457,2661,2962,3368,3734,4579,
+chr22 18474414 18479299 CR592601 0 - 18474639 18478983 0 12 457,97,117,130,123,112,116,115,182,109,575,340, 0,573,780,1094,1348,2236,2423,2627,2928,3334,3700,4545,
+chr22 18479577 18489258 NM_002882 0 + 18479726 18489129 0 6 164,137,158,129,66,230, 0,1512,4763,7807,8802,9451,
+chr22 18479577 18489258 D38076 0 + 18479726 18489129 0 6 164,137,158,129,66,227, 0,1512,4763,7807,8802,9454,
+chr22 18493917 18508527 BC053544 0 + 18507870 18507999 0 11 211,122,158,173,103,92,142,121,110,1001,1222, 0,7353,7637,7879,8274,8776,9030,9376,9580,10915,13388,
+chr22 18493918 18508512 NM_013373 0 + 18494024 18507477 0 11 210,122,158,173,103,92,142,121,110,1001,1207, 0,7352,7636,7878,8273,8775,9029,9375,9579,10914,13387,
+chr22 18494066 18510083 AK131238 0 + 18501355 18509308 0 11 62,122,158,173,103,92,142,121,110,1001,986, 0,7204,7488,7730,8125,8627,8881,9227,9431,10766,15031,
+chr22 18568473 18570601 AK057137 0 + 18568816 18569236 0 1 2128, 0,
+chr22 18603493 18630370 NM_023004 0 - 18603787 18630169 0 2 1694,223, 0,26654,
+chr22 18676355 18682162 NM_033257 0 - 18676751 18682065 0 5 546,141,101,161,207, 0,1057,1840,5360,5600,
+chr22 18700952 18725004 AK129567 0 + 18701065 18719003 0 9 141,59,25,87,66,62,34,957,428, 0,2121,2648,5618,10607,12673,13200,18028,23624,
+chr22 18762443 18802369 BC072398 0 - 18764995 18773219 0 13 536,105,110,71,73,71,130,128,108,152,158,101,176, 0,617,1205,2379,2550,5644,6629,9223,9988,10295,10647,14450,39750,
+chr22 18830235 18835710 AB051453 0 - 18830935 18834226 0 1 5475, 0,
+chr22 18830549 18833599 BC035246 0 - 18830935 18833344 0 1 3050, 0,
+chr22 18956685 18981382 AK129567 0 - 18962690 18981269 0 9 428,957,34,62,66,87,25,59,141, 0,5071,11093,11592,13654,18626,21657,22150,24556,
+chr22 19073031 19086524 NM_003426 0 + 19079568 19085812 0 4 1231,127,96,2304, 0,6444,7089,11189,
+chr22 19073360 19086521 BC013395 0 + 19073472 19085812 0 5 146,86,127,96,2301, 0,816,6115,6760,10860,
+chr22 19103428 19116700 NM_182895 0 - 19104218 19116595 0 11 1695,153,116,118,104,129,219,520,102,59,278, 0,2810,4637,4948,5142,5841,6102,6430,7157,7342,12994,
+chr22 19103428 19116700 NM_153334 0 - 19104218 19116595 0 11 1695,153,131,118,104,129,219,520,102,59,278, 0,2810,4637,4948,5142,5841,6102,6430,7157,7342,12994,
+chr22 19103428 19116666 AB024433 0 - 19109693 19110252 0 11 1695,153,116,118,104,129,219,520,102,59,244, 0,2810,4637,4948,5142,5841,6102,6430,7157,7342,12994,
+chr22 19120359 19174676 NM_032775 0 - 19120913 19168052 0 7 920,234,193,719,166,260,76, 0,4924,16289,23339,29831,47466,54241,
+chr22 19120374 19174663 AK027266 0 - 19120442 19168052 0 7 144,197,193,719,166,260,63, 0,4946,16274,23324,29816,47451,54226,
+chr22 19186439 19266472 NM_001003891 0 + 19186519 19265545 0 18 148,88,52,30,213,239,351,111,120,137,128,135,64,67,161,167,99,1064, 0,29518,43837,45546,47337,56851,58868,60922,67514,75012,75241,75514,75731,76760,77256,77502,78129,78969,
+chr22 19186439 19266472 NM_015889 0 + 19186519 19265545 0 17 148,88,52,30,213,239,351,111,137,128,135,64,67,161,167,99,1064, 0,29518,43837,45546,47337,56851,58868,60922,75012,75241,75514,75731,76760,77256,77502,78129,78969,
+chr22 19186481 19265708 CR456537 0 + 19186519 19265545 0 16 106,88,52,30,239,351,111,137,128,135,64,67,161,167,99,300, 0,29476,43795,45504,56809,58826,60880,74970,75199,75472,75689,76718,77214,77460,78087,78927,
+chr22 19252518 19266458 AK124276 0 + 19253953 19265545 0 10 1555,137,128,135,64,67,161,167,99,1050, 0,8933,9162,9435,9652,10681,11177,11423,12050,12890,
+chr22 19379955 19383445 NM_032262 0 + 19380026 19380509 0 8 1193,124,117,57,60,73,41,293, 0,1472,1892,2354,2519,2854,3074,3197,
+chr22 19386544 19413509 NM_002650 0 - 19386888 19413392 0 23 396,84,90,160,121,126,105,110,71,73,71,130,121,54,168,91,194,80,120,128,108,152,273, 0,1593,2205,2996,3638,4783,4990,5578,6755,6925,10005,10990,13595,18785,19527,20071,21610,21929,22189,25268,26033,26340,26692,
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+chr22 22646877 22650652 NM_000854 0 + 22646942 22650351 0 5 177,88,151,174,511, 0,815,2495,2738,3264,
+chr22 22646920 22650455 CR456374 0 + 22646942 22650351 0 5 134,88,151,132,314, 0,772,2452,2695,3221,
+chr22 22665148 22671812 NM_015371 0 - 22666992 22671807 0 4 339,177,88,117, 0,1674,5058,6547,
+chr22 22700694 22708785 NM_000853 0 - 22700976 22708785 0 5 477,177,151,88,112, 0,681,3220,5559,7979,
+chr22 22700695 22708825 BC007065 0 - 22700976 22701549 0 5 476,177,151,88,152, 0,680,3219,5558,7978,
+chr22 22732318 22899150 NM_012295 0 + 22756519 22898718 0 37 53,77,93,114,135,181,130,150,287,169,137,218,79,188,153,195,243,157,116,162,207,146,262,261,152,179,183,332,114,164,97,675,75,283,165,314,576, 0,24127,24772,27031,29822,31601,37788,39522,43571,44890,47925,48622,50645,51657,52733,55173,58986,60539,64353,71416,72767,73194,75640,79772,84129,86212,101768,107569,122504,152603,153733,154842,156650,159916,164314,165707,166256,
+chr22 22732351 22899150 BC054497 0 + 22756519 22898718 0 36 20,77,93,114,135,181,130,287,169,137,218,79,188,153,195,243,157,116,162,207,146,262,261,152,92,183,332,114,164,97,675,75,283,165,314,576, 0,24094,24739,26998,29789,31568,37755,43538,44857,47892,48589,50612,51624,52700,55140,58953,60506,64320,71383,72734,73161,75607,79739,84096,86179,101735,107536,122471,152570,153700,154809,156617,159883,164281,165674,166223,
+chr22 22851378 22860259 AK128808 0 - 22854849 22860167 0 3 1070,1825,578, 0,1943,8303,
+chr22 22870277 22873472 AK129715 0 + 22870498 22870939 0 2 729,1087, 0,2108,
+chr22 22901997 22909628 NM_019601 0 + 22902041 22908958 0 15 120,211,152,168,175,202,86,269,144,159,249,273,177,103,695, 0,1581,2019,2660,3290,3618,4010,4185,4540,4781,5726,6095,6483,6749,6936,
+chr22 22901997 22909628 BC033107 0 + 22905289 22908958 0 15 120,211,152,168,175,202,86,269,144,159,249,273,177,103,695, 0,1581,2019,2660,3290,3618,4010,4185,4540,4781,5726,6095,6483,6749,6936,
+chr22 22940181 22965581 BC073999 0 - 22940491 22965247 0 12 457,111,170,107,191,137,147,158,196,96,131,507, 0,5336,5585,5886,6416,6971,11724,12391,13163,13838,14214,24893,
+chr22 22940192 22965582 NM_004121 0 - 22940491 22965247 0 12 446,111,167,107,191,137,147,158,196,96,131,508, 0,5325,5574,5875,6405,6960,11713,12380,13152,13827,14203,24882,
+chr22 22972349 22986042 AL117401 0 + 22972526 22973813 0 7 1571,207,63,107,129,915,2021, 0,4925,6169,6939,9080,9865,11672,
+chr22 22991419 23137775 NM_015330 0 + 23022753 23135145 0 17 86,104,190,154,1631,208,74,176,164,92,91,84,157,103,117,60,2720, 0,5802,31297,42415,50390,53322,57948,59358,63512,67488,76188,92363,94578,98320,140690,141750,143636,
+chr22 23149731 23152952 AK091970 0 - 23151594 23152074 0 3 1167,654,169, 0,1699,3052,
+chr22 23153645 23162878 NM_000675 0 + 23153926 23162011 0 2 613,1774, 0,7459,
+chr22 23153675 23162878 M97370 0 + 23153935 23162011 0 2 583,1774, 0,7429,
+chr22 23215763 23229882 CR627429 0 + 23215925 23223055 0 5 266,172,88,3499,701, 0,4865,6884,7095,13418,
+chr22 23215804 23247106 NM_016327 0 + 23215925 23246316 0 10 225,172,88,95,162,170,82,43,155,874, 0,4824,6843,15466,18041,19918,25104,26703,28336,30428,
+chr22 23260963 23275829 NM_031444 0 - 23263527 23275513 0 6 2659,242,92,166,85,359, 0,3400,6472,7466,8475,14507,
+chr22 23260963 23275829 BC070109 0 - 23263527 23269449 0 6 2656,242,92,166,85,359, 0,3400,6472,7466,8475,14507,
+chr22 23260963 23275829 BC070109 0 - 23263527 23275513 0 6 2656,242,92,166,85,359, 0,3400,6472,7466,8475,14507,
+chr22 23260963 23276150 BC002924 0 - 23263527 23269449 0 6 2659,242,92,166,85,14, 0,3400,6472,7466,8475,15173,
+chr22 23276171 23293063 NM_004175 0 + 23278196 23292499 0 4 422,144,193,626, 0,2007,12334,16266,
+chr22 23306156 23313594 NM_207644 0 - 23313101 23313560 0 4 777,1180,129,857, 0,2579,4186,6581,
+chr22 23323736 23349514 NM_013421 0 + 23331602 23349360 0 17 106,70,242,69,174,171,131,87,193,158,150,137,188,128,113,114,301, 0,4738,5774,6749,7142,7859,11560,11825,17112,17697,19891,20564,24216,24636,24865,25059,25477,
+chr22 23329982 23349517 J05235 0 + 23331602 23348011 0 15 572,87,77,171,131,87,193,158,150,137,210,128,113,114,304, 0,788,993,1613,5314,5579,10866,11451,13645,14318,17948,18390,18619,18813,19231,
+chr22 23330482 23349524 BC025927 0 + 23347964 23349360 0 14 72,282,171,131,87,193,158,150,137,188,128,113,114,311, 0,288,1113,4814,5079,10366,10951,13145,13818,17470,17890,18119,18313,18731,
+chr22 23439554 23495237 NM_001008496 0 - 23439992 23483020 0 21 555,148,126,151,71,104,225,73,185,115,118,127,112,204,81,122,215,132,121,124,395, 0,714,4096,5853,6411,8916,9143,15050,16674,29873,30370,30659,32353,34980,35750,36750,37457,38874,40835,43364,55288,
+chr22 23655761 23659868 NM_001001663 0 - 23655853 23658796 0 3 355,139,13, 0,2908,4094,
+chr22 23898489 23899336 BC082248 0 - 23898598 23899279 0 1 847, 0,
+chr22 23920378 23927878 NM_004076 0 + 23921917 23927733 0 6 52,95,119,133,143,311, 0,1519,2816,3905,5362,7189,
+chr22 23941938 23952378 NM_000496 0 + 23941950 23952293 0 5 66,119,133,143,254, 0,3500,6435,8018,10186,
+chr22 24038441 24040745 NM_001013618 0 + 24038541 24040607 0 2 455,458, 0,1846,
+chr22 24064096 24065555 AK130452 0 - 24064809 24065436 0 1 1459, 0,
+chr22 24079194 24082993 AK125903 0 + 24080916 24081300 0 2 3500,289, 0,3510,
+chr22 24285414 24443539 BC036797 0 + 24285561 24423366 0 23 69,135,77,74,102,75,62,52,92,100,79,131,95,108,150,67,101,67,96,163,137,114,730, 0,125,39483,79698,96682,98736,102845,107402,109543,113922,120276,122643,125295,130213,137948,138616,139215,145004,146174,149514,153351,156390,157395,
+chr22 24285499 24444470 NM_005160 0 + 24285561 24442971 0 21 175,77,74,102,75,62,52,92,100,79,131,95,108,67,101,67,96,163,137,114,1661, 0,39398,79613,96597,98651,102760,107317,109458,113837,120191,122558,125210,130128,138531,139130,144919,146089,149429,153266,156305,157310,
+chr22 24462673 24751561 NM_032608 0 + 24481613 24748198 0 44 141,148,159,1314,67,113,177,199,143,101,64,145,174,91,193,81,148,160,184,223,110,66,129,144,90,120,109,125,155,124,201,111,105,153,114,117,84,138,186,131,45,138,1246,599, 0,18831,21078,25962,27957,28719,30181,35430,37903,39581,43275,55800,81352,84256,86623,90764,93143,101582,103947,105277,109317,126167,132133,134036,135806,148603,149151,153003,156154,160460,161478,166169,168793,179104,203983,205558,208213,210132,213025,250209,261111,262564,284291,288289,
+chr22 24462754 24751163 AY077700 0 + 24481613 24748198 0 44 60,148,159,1314,67,113,177,199,143,101,64,145,174,91,193,81,151,160,184,223,110,66,129,144,90,120,109,125,155,124,201,111,105,153,114,117,84,138,186,131,45,138,1246,201, 0,18750,20997,25881,27876,28638,30100,35349,37822,39500,43194,55719,81271,84175,86542,90683,93059,101501,103866,105196,109236,126086,132052,133955,135725,148522,149070,152922,156073,160379,161397,166088,168712,179023,203902,205477,208132,210051,212944,250128,261030,262483,284210,288208,
+chr22 24490547 24748286 AB042648 0 + 24490579 24748198 0 39 150,113,177,199,143,101,64,145,174,91,193,81,148,160,184,223,110,66,129,144,90,120,109,125,155,124,201,111,105,153,114,117,84,138,186,131,45,138,1322, 0,845,2307,7556,10029,11707,15401,27926,53478,56382,58749,62890,65269,73708,76073,77403,81443,98293,104259,106162,107932,120729,121277,125129,128280,132586,133604,138295,140919,151230,176109,177684,180339,182258,185151,222335,233237,234690,256417,
+chr22 24490547 24748286 AB042648 0 + 24723827 24748198 0 39 150,113,177,199,143,101,64,145,174,91,193,81,148,160,184,223,110,66,129,144,90,120,109,125,155,124,201,111,105,153,114,117,84,138,186,131,45,138,1322, 0,845,2307,7556,10029,11707,15401,27926,53478,56382,58749,62890,65269,73708,76073,77403,81443,98293,104259,106162,107932,120729,121277,125129,128280,132586,133604,138295,140919,151230,176109,177684,180339,182258,185151,222335,233237,234690,256417,
+chr22 24889993 25100988 AY358405 0 + 24890189 25100815 0 17 290,741,134,193,186,166,167,195,139,197,195,192,195,33,112,103,203, 0,122932,124818,127414,129510,136505,141196,142294,144290,170962,178245,181578,195898,203977,206104,208199,210792,
+chr22 24890033 25100988 NM_021115 0 + 24890189 25100815 0 17 250,741,134,193,186,166,167,195,139,197,195,192,195,33,115,103,203, 0,122892,124778,127374,129470,136465,141156,142254,144250,170922,178205,181538,195858,203937,206061,208159,210752,
+chr22 24890033 25104115 AB023144 0 + 24890189 25100815 0 15 250,741,134,193,186,166,167,195,139,197,195,195,115,103,3330, 0,122892,124778,127374,129470,136465,141156,142254,144250,170922,178205,195858,206061,208159,210752,
+chr22 24890177 25100854 CR456574 0 + 24890189 25100815 0 15 106,741,134,193,186,166,167,195,139,197,195,192,115,103,69, 0,122748,124634,127230,129326,136321,141012,142110,144106,170778,178061,181394,205917,208015,210608,
+chr22 25149855 25164125 NM_020437 0 + 25154213 25163726 0 4 151,1110,114,509, 0,4056,13123,13761,
+chr22 25149855 25164125 BC036753 0 + 25154135 25163726 0 4 151,1110,114,509, 0,4056,13123,13761,
+chr22 25164760 25167375 AK124497 0 - 25166620 25167022 0 1 2615, 0,
+chr22 25171999 25204374 NM_152843 0 - 25172794 25202282 0 13 941,584,97,54,37,73,95,117,108,144,91,519,90, 0,12763,13975,14571,14746,17071,19239,20822,21352,25513,27785,30242,32285,
+chr22 25171999 25204374 NM_022081 0 - 25173752 25202282 0 14 1925,109,133,910,97,37,73,95,117,108,144,91,519,181, 0,6379,6965,12437,13975,14746,17071,19239,20822,21352,25513,27785,30242,32194,
+chr22 25204399 25212451 NM_001013694 0 + 25204410 25212192 0 8 104,95,41,260,99,155,46,469, 0,125,2143,4149,4510,6164,7145,7583,
+chr22 25212450 25232991 NM_001008697 0 - 25212532 25230792 0 16 438,166,143,244,169,107,528,153,128,157,154,218,86,77,77,78, 0,2208,2866,4142,4790,6938,7173,9969,11735,14372,14844,18133,18686,19188,20168,20463,
+chr22 25212450 25215139 AF070662 0 - 25212532 25214893 0 2 438,481, 0,2208,
+chr22 25246269 25285924 NM_001008566 0 - 25248740 25262150 0 7 518,49,51,199,930,72,181, 0,2464,6945,10538,15039,18854,39474,
+chr22 25319915 25338545 NM_001887 0 - 25320007 25336837 0 6 276,143,133,119,199,51, 0,2481,8491,12674,16742,18579,
+chr22 25342481 25351186 NM_001886 0 + 25343114 25351005 0 6 23,51,119,142,143,329, 0,621,1270,3517,6324,8376,
+chr22 25342481 25351054 BC069404 0 + 25342483 25351005 0 6 23,51,119,142,143,197, 0,621,1270,3517,6324,8376,
+chr22 25388209 25393171 AK124820 0 - 25392639 25393134 0 3 1197,439,977, 0,1307,3985,
+chr22 26468819 26522040 NM_002430 0 - 26471456 26521085 0 2 2819,4736, 0,48485,
+chr22 26572211 26639809 NM_012399 0 - 26575433 26639733 0 12 1994,86,123,111,78,84,75,8,92,146,31,96, 0,3184,6717,8461,22068,42885,44882,45460,46131,59294,62647,67502,
+chr22 26572212 26639765 BC031427 0 - 26574154 26639733 0 11 1993,123,111,78,84,75,8,92,146,31,52, 0,6716,8460,22067,42884,44881,45459,46130,59293,62646,67501,
+chr22 26701809 26884009 AB028966 0 - 26702762 26827869 0 18 2584,108,130,24,77,232,125,721,180,145,141,166,219,130,110,524,1342,376, 0,3981,8610,9521,11319,12019,14867,17272,20106,32980,48958,112812,114922,117647,119903,124011,125794,181824,
+chr22 26713010 26729123 AB051435 0 + 26713532 26715192 0 6 1067,181,329,2229,1751,291, 0,2004,4942,6961,14060,15822,
+chr22 27408284 27462376 NM_001005735 0 - 27408438 27455263 0 16 244,81,86,116,164,87,100,62,54,109,91,148,125,129,325,66, 0,1392,6289,7384,7967,9158,12095,15762,22263,24166,31652,37234,37500,42677,46660,54026,
+chr22 27408284 27462376 NM_007194 0 - 27408438 27455263 0 15 244,81,86,116,164,87,100,62,54,109,91,148,125,325,66, 0,1392,6289,7384,7967,9158,12095,15762,22263,24166,31652,37234,37500,46660,54026,
+chr22 27408284 27462376 NM_145862 0 - 27408438 27455263 0 14 244,81,86,116,164,100,62,54,109,91,148,125,325,66, 0,1392,6289,7384,7967,12095,15762,22263,24166,31652,37234,37500,46660,54026,
+chr22 27408284 27462964 AF217975 0 - 27442141 27455263 0 16 244,81,86,116,164,87,100,62,54,109,91,114,148,125,325,654, 0,1392,6289,7384,7967,9158,12095,15762,22263,24166,31652,33775,37234,37500,46660,54026,
+chr22 27408319 27462348 CR617629 0 - 27408438 27455263 0 15 209,81,86,83,164,87,100,62,54,109,91,148,125,325,38, 0,1357,6254,7349,7932,9123,12060,15727,22228,24131,31617,37199,37465,46625,53991,
+chr22 27408391 27462331 BC004207 0 - 27408438 27439956 0 15 137,81,86,116,164,87,100,62,54,109,91,148,125,325,21, 0,1285,6182,7277,7860,9051,11988,15655,22156,24059,31545,37127,37393,46553,53919,
+chr22 27408428 27455263 AY551304 0 - 27408438 27455263 0 3 100,80,319, 0,1248,46516,
+chr22 27408428 27455263 AY551295 0 - 27408438 27455263 0 6 100,81,86,116,78,227, 0,1248,6145,7240,7823,46608,
+chr22 27408428 27455263 AY551303 0 - 27408438 27455263 0 12 100,81,86,116,164,87,100,62,54,109,91,319, 0,1248,6145,7240,7823,9014,11951,15618,22119,24022,31508,46516,
+chr22 27408428 27455263 AY551300 0 - 27409744 27455263 0 10 100,80,100,62,54,109,91,148,125,319, 0,1248,11951,15618,22119,24022,31508,37090,37356,46516,
+chr22 27408428 27455263 AY551296 0 - 27415778 27455263 0 7 100,81,86,116,30,68,319, 0,1248,6145,7240,7823,37413,46516,
+chr22 27408428 27455263 AY551298 0 - 27420455 27455263 0 13 100,81,86,116,164,87,100,54,109,91,148,125,319, 0,1248,6145,7240,7823,9014,11951,22119,24022,31508,37090,37356,46516,
+chr22 27408428 27455263 AY551302 0 - 27432539 27455263 0 13 100,81,86,116,164,87,100,62,54,109,148,125,319, 0,1248,6145,7240,7823,9014,11951,15618,22119,24022,37090,37356,46516,
+chr22 27408428 27455263 AY551301 0 - 27440011 27455263 0 14 100,81,86,116,164,87,100,62,54,109,91,38,125,319, 0,1248,6145,7240,7823,9014,11951,15618,22119,24022,31508,36999,37356,46516,
+chr22 27462596 27478048 NM_172002 0 + 27462637 27477711 0 6 277,97,90,145,48,429, 0,1827,2560,3809,9186,15023,
+chr22 27493260 27509832 NM_173510 0 + 27493391 27506868 0 5 316,54,225,138,3202, 0,1006,8229,10789,13370,
+chr22 27493365 27506999 CR456461 0 + 27493391 27506868 0 4 52,111,138,369, 0,8238,10684,13265,
+chr22 27515102 27521114 NM_005080 0 - 27516087 27521066 0 5 1172,146,129,97,275, 0,1486,2516,4496,5737,
+chr22 27515110 27521071 AB076384 0 - 27515716 27521066 0 6 1164,77,43,129,97,232, 0,1478,1581,2508,4488,5729,
+chr22 27604443 27778029 AB051436 0 + 27707617 27774164 0 9 165,126,75,132,111,168,103,1752,3909, 0,103174,158593,159397,160878,162814,164487,165295,169677,
+chr22 27604443 27778029 AB051436 0 + 27775181 27775658 0 9 165,126,75,132,111,168,103,1752,3909, 0,103174,158593,159397,160878,162814,164487,165295,169677,
+chr22 27779213 27782461 NM_015370 0 - 27779283 27782334 0 3 511,429,130, 0,1743,3118,
+chr22 27793619 27864283 BC063787 0 + 27793672 27862654 0 9 150,163,92,125,154,333,159,85,1798, 0,21180,25784,48279,52185,64264,65546,67204,68866,
+chr22 27793659 27863040 NM_153379 0 + 27793672 27862654 0 9 104,163,92,125,154,333,210,85,555, 0,21140,25744,48239,52145,64224,65506,67164,68826,
+chr22 27793659 27888875 NM_032045 0 + 27793672 27887648 0 10 110,163,92,125,154,333,210,85,157,1290, 0,21140,25744,48239,52145,64224,65506,67164,68826,93926,
+chr22 27865144 27867361 AK172861 0 + 27865207 27865726 0 1 2217, 0,
+chr22 27926506 27980140 NM_133455 0 + 27926581 27979487 0 15 176,114,104,84,62,121,90,147,90,53,63,45,45,85,781, 0,8962,9563,19169,20526,25056,25629,26292,27415,27650,28173,28341,37481,48239,52853,
+chr22 27926581 27980139 AJ416090 0 + 27926581 27979487 0 15 101,114,104,78,62,121,90,147,90,53,63,45,45,85,780, 0,8887,9488,19100,20451,24981,25554,26217,27340,27575,28098,28266,37406,48164,52778,
+chr22 27952224 27954403 AL831910 0 + 27952386 27953067 0 2 1787,247, 0,1932,
+chr22 27980397 27988468 NM_012265 0 - 27980602 27986169 0 7 383,288,163,384,190,152,178, 0,471,847,3980,5624,7571,7893,
+chr22 27988824 28020705 NM_013986 0 + 27988879 28020705 0 15 68,37,52,124,187,168,212,33,119,130,123,163,98,253,40, 0,3934,4098,5459,9748,14108,18641,23855,24206,27958,29546,30452,30953,31318,31841,
+chr22 27988836 28021059 NM_005243 0 + 27988879 28020705 0 17 56,37,52,124,187,168,212,181,38,33,119,130,123,163,98,253,394, 0,3922,4086,5447,9736,14096,18629,20312,23268,23843,24194,27946,29534,30440,30941,31306,31829,
+chr22 27988839 28011224 BC000527 0 + 27988879 28011046 0 9 53,37,52,124,187,168,212,181,269, 0,3919,4083,5444,9733,14093,18626,20309,22116,
+chr22 27988858 28020880 AK056309 0 + 27988879 28020705 0 18 34,37,52,124,18,187,168,212,181,35,33,119,130,123,163,98,253,215, 0,3900,4064,5425,5949,9714,14074,18607,20290,23249,23821,24172,27924,29512,30418,30919,31284,31807,
+chr22 27988868 28020879 AK056681 0 + 27988879 28020705 0 16 24,37,52,124,187,212,181,38,33,119,130,123,163,98,253,214, 0,3890,4054,5415,9704,18597,20280,23236,23811,24162,27914,29502,30408,30909,31274,31797,
+chr22 27988875 28021057 BC011048 0 + 27988879 28020705 0 17 17,37,52,124,187,168,212,181,35,33,119,130,123,163,98,253,392, 0,3883,4047,5408,9697,14057,18590,20273,23232,23804,24155,27907,29495,30401,30902,31267,31790,
+chr22 28027550 28033328 NM_152237 0 + 28028649 28031546 0 5 147,652,108,97,1958, 0,1080,3432,3631,3820,
+chr22 28033475 28036302 NM_006477 0 - 28033843 28035789 0 3 636,125,732, 0,930,2095,
+chr22 28033476 28036302 NM_001007279 0 - 28034401 28035789 0 2 1054,732, 0,2094,
+chr22 28048222 28109123 NM_001127 0 - 28049363 28087786 0 23 1216,9,155,87,85,130,146,144,21,202,260,99,166,116,96,121,222,191,246,136,106,64,157, 0,2032,2698,2943,3769,4107,6585,11310,12074,12976,13821,14605,21538,22355,23491,24025,26970,28746,31046,32144,35321,39527,60744,
+chr22 28048222 28109123 NM_145730 0 - 28049363 28087786 0 22 1216,9,155,87,85,130,146,144,202,260,99,166,116,96,121,222,191,246,136,106,64,157, 0,2032,2698,2943,3769,4107,6585,11310,12976,13821,14605,21538,22355,23491,24025,26970,28746,31046,32144,35321,39527,60744,
+chr22 28048222 28052864 BX537680 0 - 28050734 28052359 0 4 2853,87,85,535, 0,2943,3769,4107,
+chr22 28048400 28143736 L13939 0 - 28049363 28143704 0 22 1038,9,155,87,85,130,146,144,21,202,260,99,166,116,96,121,222,191,246,136,106,69, 0,1854,2520,2765,3591,3929,6407,11132,11896,12798,13643,14427,21360,22177,23313,23847,26792,28568,30868,31966,91297,95267,
+chr22 28048407 28109126 BC046242 0 - 28049363 28087786 0 21 1031,155,87,85,130,86,144,202,260,99,166,116,96,121,222,191,246,136,106,64,160, 0,2513,2758,3584,3922,6400,11125,12791,13636,14420,21353,22170,23306,23840,26785,28561,30861,31959,35136,39342,60559,
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+chr22 28159125 28162998 AJ010228 0 + 28159334 28162665 0 2 582,914, 0,2959,
+chr22 28161797 28162381 CR456561 0 - 28161996 28162335 0 1 584, 0,
+chr22 28200772 28211829 NM_021076 0 + 28200805 28211246 0 4 916,200,125,2438, 0,3145,5493,8619,
+chr22 28228710 28274198 NM_001002878 0 - 28228999 28269690 0 21 353,191,116,88,104,115,97,102,109,100,41,78,133,115,147,98,114,144,107,116,208, 0,2938,3853,8861,9095,10838,11840,12830,17670,19910,20258,20994,23663,28456,31162,34691,35261,36292,40884,42560,45280,
+chr22 28275353 28301880 NM_003634 0 - 28276477 28301625 0 10 1189,84,95,32,141,71,95,46,128,353, 0,4059,5923,6360,6695,6981,14382,15351,15594,26174,
+chr22 28324118 28419137 NM_181826 0 + 28324541 28357297 0 18 537,116,126,123,84,69,83,76,135,75,114,123,218,106,128,163,45,3843, 0,25082,33175,35514,38626,51081,52018,54613,57629,61414,64757,68250,69693,71260,74620,77863,79444,91176,
+chr22 28324118 28419137 NM_181835 0 + 28324541 28398856 0 10 537,126,123,84,69,83,76,97,18,3843, 0,33175,35514,38626,51081,52018,54613,57629,74730,91176,
+chr22 28324118 28419137 NM_181832 0 + 28324541 28403598 0 17 537,126,123,84,69,83,76,135,75,114,123,218,106,128,163,60,3843, 0,33175,35514,38626,51081,52018,54613,57629,61414,64757,68250,69693,71260,74620,77863,79444,91176,
+chr22 28324118 28419137 NM_000268 0 + 28324541 28415345 0 16 537,126,123,84,69,83,76,135,75,114,123,218,106,128,163,3843, 0,33175,35514,38626,51081,52018,54613,57629,61414,64757,68250,69693,71260,74620,77863,91176,
+chr22 28324118 28419137 NM_181833 0 + 28324541 28415345 0 5 537,126,123,84,3843, 0,33175,35514,38626,91176,
+chr22 28324118 28419137 NM_181829 0 + 28324541 28403598 0 16 537,126,84,69,83,76,135,75,114,123,218,106,128,163,45,3843, 0,33175,38626,51081,52018,54613,57629,61414,64757,68250,69693,71260,74620,77863,79444,91176,
+chr22 28324118 28419137 NM_181827 0 + 28324541 28359646 0 17 537,151,123,84,69,83,76,135,75,114,123,218,106,128,163,45,3843, 0,33175,35514,38626,51081,52018,54613,57629,61414,64757,68250,69693,71260,74620,77863,79444,91176,
+chr22 28324118 28419137 NM_181828 0 + 28324541 28403598 0 16 537,123,84,69,83,76,135,75,114,123,218,106,128,163,45,3843, 0,35514,38626,51081,52018,54613,57629,61414,64757,68250,69693,71260,74620,77863,79444,91176,
+chr22 28324118 28419137 NM_181830 0 + 28324541 28403598 0 15 537,84,69,83,76,135,75,114,123,218,106,128,163,45,3843, 0,38626,51081,52018,54613,57629,61414,64757,68250,69693,71260,74620,77863,79444,91176,
+chr22 28324118 28419137 NM_181834 0 + 28324541 28398773 0 8 537,84,135,75,114,106,128,3843, 0,38626,57629,61414,64757,71260,74620,91176,
+chr22 28417665 28419142 BC007279 0 + 28418495 28418744 0 1 1477, 0,
+chr22 28440897 28452372 NM_182527 0 + 28440967 28450112 0 5 179,144,113,154,2388, 0,7307,8275,8700,9087,
+chr22 28451499 28487523 NM_019103 0 - 28451767 28469087 0 7 398,112,81,63,154,115,109, 0,7373,9693,11461,17461,23792,35915,
+chr22 28487911 28490956 NM_013387 0 + 28487941 28490262 0 2 180,736, 0,2309,
+chr22 28487911 28490486 BC005402 0 + 28490248 28490470 0 2 180,266, 0,2309,
+chr22 28509155 28558808 NM_032204 0 - 28509555 28552868 0 20 572,80,103,131,100,120,215,193,75,69,108,75,113,111,68,130,171,159,98,88, 0,1856,3820,4747,4964,12378,13381,16025,17603,17872,18184,19498,24817,26044,27393,33722,36474,37009,43632,49565,
+chr22 28509158 28558782 AK022886 0 - 28521645 28545698 0 22 569,80,103,131,100,120,94,193,75,69,108,75,113,111,68,130,171,159,124,98,62,62, 0,1853,3817,4744,4961,12375,13499,16022,17600,17869,18181,19495,24814,26041,27390,33719,36471,37006,38861,43629,45873,49562,
+chr22 28603752 28748423 NM_021090 0 + 28691602 28746344 0 20 150,53,87,90,117,83,167,97,114,206,132,112,196,186,171,146,1405,111,89,2251, 0,73826,87766,95232,95726,105270,108294,115551,119670,123904,124691,125808,129158,130146,133318,134717,136270,138819,139399,142420,
+chr22 28603752 28748423 NM_153050 0 + 28691602 28746344 0 20 150,53,87,90,117,83,167,97,114,206,132,112,196,186,171,146,1405,89,27,2251, 0,73826,87766,95232,95726,105270,108294,115551,119670,123904,124691,125808,129158,130146,133318,134717,136270,139399,140247,142420,
+chr22 28603752 28748423 NM_153051 0 + 28691602 28746344 0 19 150,53,87,90,117,83,167,97,114,206,132,112,196,186,171,146,1405,89,2251, 0,73826,87766,95232,95726,105270,108294,115551,119670,123904,124691,125808,129158,130146,133318,134717,136270,139399,142420,
+chr22 28688225 28691507 AK127100 0 + 28688573 28688969 0 1 3282, 0,
+chr22 28748776 28751048 NM_001013676 0 + 28748851 28749316 0 1 2272, 0,
+chr22 28801006 28897614 NM_152510 0 + 28814495 28896710 0 11 28,88,142,64,37,21,27,68,158,251,1009, 0,13452,18388,22973,23937,31332,32032,38516,41168,41500,95599,
+chr22 28960996 28967302 NM_002309 0 - 28964193 28967238 0 3 3608,179,83, 0,4301,6223,
+chr22 28983374 28987394 NM_020530 0 - 28984425 28987342 0 3 1633,143,86, 0,2170,3934,
+chr22 29005661 29010056 BC021927 0 - 29006162 29010040 0 9 570,95,83,114,124,133,188,71,129, 0,713,897,1144,1706,2036,2254,3587,4266,
+chr22 29012533 29047448 NM_031937 0 - 29012917 29047424 0 9 858,158,190,66,115,107,108,100,233, 0,1657,1930,2805,2950,3746,7453,12540,34682,
+chr22 29012535 29047444 AK127939 0 - 29012917 29047424 0 9 859,155,190,66,115,107,108,121,229, 0,1658,1928,2803,2948,3744,7451,12538,34680,
+chr22 29012553 29047471 CR626545 0 - 29012917 29047424 0 9 841,155,190,66,115,107,108,100,256, 0,1640,1910,2785,2930,3726,7433,12520,34662,
+chr22 29052532 29077467 NM_005877 0 - 29055136 29077335 0 16 2706,72,102,155,208,246,122,186,118,194,151,75,258,208,122,195, 0,3477,3662,5036,5700,6799,7140,8206,8705,9702,10210,10815,12943,14322,20961,24740,
+chr22 29089353 29096326 AB051443 0 - 29094929 29095337 0 1 6973, 0,
+chr22 29099358 29107856 NM_001017981 0 - 29100142 29107856 0 9 807,103,144,120,157,86,72,144,285, 0,895,1246,1466,5523,7088,7254,7800,8213,
+chr22 29117486 29144382 NM_012429 0 + 29117659 29142950 0 12 227,76,44,60,189,96,61,84,107,140,170,1563, 0,2699,9398,10151,10471,12243,12482,13652,18815,19004,19290,25333,
+chr22 29117579 29137516 BC058915 0 + 29117659 29137044 0 11 134,76,44,60,189,96,61,84,107,140,740, 0,2606,9305,10058,10378,12150,12389,13559,18722,18911,19197,
+chr22 29117584 29145830 AB033012 0 + 29143591 29143867 0 12 129,76,44,60,189,96,61,84,107,140,170,3011, 0,2601,9300,10053,10373,12145,12384,13554,18717,18906,19192,25235,
+chr22 29146273 29149595 NM_016498 0 + 29146421 29149075 0 4 215,128,233,593, 0,985,1438,2729,
+chr22 29179772 29192571 NM_174975 0 - 29180561 29192499 0 12 911,170,140,107,84,61,96,189,60,44,76,126, 0,2078,2323,2854,5588,7102,7750,9276,10787,10980,11275,12673,
+chr22 29209453 29226236 NM_174977 0 - 29210647 29226152 0 12 1334,170,140,107,84,61,96,189,60,44,76,138, 0,2660,2921,3136,3561,5237,5953,6341,6670,7015,14764,16645,
+chr22 29209453 29226236 AK093448 0 - 29210647 29216480 0 12 1334,170,140,107,84,61,96,189,60,44,76,138, 0,2660,2921,3136,3561,5237,5953,6341,6670,7015,14764,16645,
+chr22 29209615 29213345 AK098147 0 + 29210121 29210508 0 3 1756,138,366, 0,2725,3364,
+chr22 29275177 29285430 NM_004861 0 - 29275493 29277933 0 4 1457,140,129,65, 0,2625,3623,10188,
+chr22 29297166 29312448 NM_014303 0 - 29297586 29312374 0 15 504,162,167,185,126,131,90,75,117,90,172,110,154,80,98, 0,2211,2511,3125,3427,3945,4386,4708,4902,7739,7920,10660,11395,12565,15184,
+chr22 29297176 29300615 AK125778 0 - 29300112 29300535 0 2 494,1238, 0,2201,
+chr22 29297187 29312387 CR597567 0 - 29297586 29312374 0 15 483,159,167,185,126,131,90,75,117,90,172,110,154,80,37, 0,2190,2490,3104,3406,3924,4365,4687,4881,7718,7899,10639,11374,12544,15163,
+chr22 29297375 29312399 CR456539 0 - 29297586 29312374 0 15 295,162,167,185,126,116,90,75,117,90,172,110,154,80,49, 0,2002,2302,2916,3218,3736,4177,4499,4693,7530,7711,10451,11186,12356,14975,
+chr22 29327714 29347601 NM_000355 0 + 29327872 29347062 0 9 222,193,170,153,173,187,166,116,601, 0,3697,5699,7175,8127,8427,10156,15794,19286,
+chr22 29327744 29347601 BC011239 0 + 29327872 29347062 0 9 192,193,89,153,173,187,166,116,601, 0,3667,5669,7145,8097,8397,10126,15764,19256,
+chr22 29356866 29367660 NM_001001479 0 + 29356991 29367572 0 2 744,522, 0,10272,
+chr22 29382000 29388396 BC028724 0 - 29384080 29384544 0 3 2269,242,394, 0,2379,6002,
+chr22 29382592 29388426 NM_152511 0 - 29383977 29384544 0 2 2029,424, 0,5410,
+chr22 29414621 29628173 AK131374 0 + 29414760 29626880 0 14 264,209,254,193,118,58,147,246,121,104,96,185,233,1436, 0,47080,176348,193345,194142,195096,195409,196647,199041,199382,199557,199736,211756,212116,
+chr22 29415418 29628361 NM_030758 0 + 29415450 29626880 0 14 676,209,254,193,118,58,147,246,121,104,96,185,233,1624, 0,46283,175551,192548,193345,194299,194612,195850,198244,198585,198760,198939,210959,211319,
+chr22 29415452 29628365 AF288741 0 + 29415564 29626880 0 14 642,209,254,193,118,58,147,246,121,104,96,185,233,1628, 0,46249,175517,192514,193311,194265,194578,195816,198210,198551,198726,198905,210925,211285,
+chr22 29415452 29628365 AF288741 0 + 29591214 29626880 0 14 642,209,254,193,118,58,147,246,121,104,96,185,233,1628, 0,46249,175517,192514,193311,194265,194578,195816,198210,198551,198726,198905,210925,211285,
+chr22 29484793 29627313 AK093196 0 + 29591214 29626880 0 13 140,254,193,118,55,147,246,121,104,96,185,233,576, 0,106176,123173,123970,124927,125237,126475,128869,129210,129385,129564,141584,141944,
+chr22 29642949 29647091 NM_153044 0 + 29645816 29646299 0 2 107,1822, 0,2320,
+chr22 29647153 29688741 NM_014941 0 - 29647343 29670956 0 27 259,189,94,225,142,55,132,381,75,133,106,129,155,141,86,83,80,126,112,160,109,91,69,35,54,110,1136, 0,1406,5746,5932,6276,6853,7447,8168,8635,9898,10319,10970,11202,11452,13008,13346,14145,14820,15278,15499,19728,23138,23763,30149,32027,36611,40452,
+chr22 29691605 29696603 NM_017903 0 + 29692069 29693552 0 3 714,733,894, 0,1789,4104,
+chr22 29691988 29693597 CR456447 0 + 29692069 29693552 0 2 331,134, 0,1475,
+chr22 29801858 29825163 NM_134270 0 + 29803798 29825006 0 21 138,131,149,94,79,98,321,73,72,522,173,153,76,165,63,70,174,118,152,69,308, 0,1860,6646,7194,7380,7553,8380,8789,9489,9642,10356,13984,14215,15414,15679,15950,17348,17743,18426,19566,22997,
+chr22 29801858 29825163 NM_134269 0 + 29803798 29821569 0 21 138,131,149,94,79,98,321,73,72,522,173,153,76,165,63,70,174,118,152,165,308, 0,1860,6646,7194,7380,7553,8380,8789,9489,9642,10356,13984,14215,15414,15679,15950,17348,17743,18426,19566,22997,
+chr22 29801858 29825163 NM_006932 0 + 29803798 29825006 0 20 138,131,149,94,79,98,321,73,72,522,173,153,76,165,63,70,174,118,152,308, 0,1860,6646,7194,7380,7553,8380,8789,9489,9642,10356,13984,14215,15414,15679,15950,17348,17743,18426,22997,
+chr22 29801858 29825163 AY061972 0 + 29811931 29825006 0 21 138,131,149,94,79,98,321,73,72,522,173,153,76,165,63,70,174,118,152,69,308, 0,1860,6646,7194,7380,7553,8380,8789,9489,9642,10356,13984,14215,15414,15679,15950,17348,17743,18426,19566,22997,
+chr22 29801858 29825163 Y13492 0 + 29811931 29825006 0 20 138,131,149,94,79,98,321,73,72,522,173,153,76,165,63,70,174,118,152,308, 0,1860,6646,7194,7380,7553,8380,8789,9489,9642,10356,13984,14215,15414,15679,15950,17348,17743,18426,22997,
+chr22 29802695 29804105 BC012026 0 - 29803659 29803863 0 1 1410, 0,
+chr22 29825316 29828105 NM_080430 0 - 29825509 29828045 0 5 352,79,35,36,189, 0,431,881,1153,2600,
+chr22 29843505 29855236 AK092859 0 + 29843554 29854959 0 13 154,1166,114,109,117,176,112,110,184,138,78,105,784, 0,1879,3410,3647,3955,4391,4985,5248,5505,10132,10440,10644,10947,
+chr22 29843514 29855236 NM_001002837 0 + 29843554 29854959 0 13 145,62,114,109,117,176,112,110,184,138,78,105,784, 0,1870,3401,3638,3946,4382,4976,5239,5496,10123,10431,10635,10938,
+chr22 29843514 29855236 NM_014422 0 + 29846380 29854959 0 14 145,62,178,114,109,117,176,112,110,184,138,78,105,784, 0,1870,2858,3401,3638,3946,4382,4976,5239,5496,10123,10431,10635,10938,
+chr22 29855346 29861023 NM_015715 0 - 29856262 29860894 0 7 1130,117,133,284,135,133,643, 0,1876,2101,2903,3469,3860,5034,
+chr22 29880732 29927554 NM_152267 0 + 29907634 29925126 0 7 111,224,19,113,55,118,2526, 0,26854,32491,35276,36743,41305,44296,
+chr22 29880741 29927552 BC012817 0 + 29907634 29925709 0 8 102,224,19,113,55,118,94,1847, 0,26845,32482,35267,36734,41296,44287,44964,
+chr22 29880782 29927552 AK095947 0 + 29907634 29925126 0 5 61,224,19,118,2524, 0,26804,32441,41255,44246,
+chr22 29932803 30000618 NM_005569 0 + 29932948 29998981 0 16 161,100,136,110,189,106,197,187,87,132,57,66,175,56,158,1782, 0,13456,46027,46857,47625,49870,50331,53682,54720,55512,55880,58872,60266,61188,62887,66033,
+chr22 29968941 30000618 NM_016733 0 + 29969256 29998981 0 15 368,136,110,189,106,197,187,87,132,57,66,175,56,158,1782, 0,9889,10719,11487,13732,14193,17544,18582,19374,19742,22734,24128,25050,26749,29895,
+chr22 29969026 29998177 BC013051 0 + 29969256 29997680 0 15 283,136,110,189,106,197,187,87,132,57,66,175,56,158,849, 0,9804,10634,11402,13647,14108,17459,18497,19289,19657,22649,24043,24965,26664,28302,
+chr22 30002133 30013028 NM_052880 0 - 30003623 30012884 0 6 1695,79,201,120,117,214, 0,7721,7905,9371,9586,10681,
+chr22 30009577 30013019 AF528079 0 - 30009736 30012884 0 5 356,201,120,117,205, 0,461,1927,2142,3237,
+chr22 30046343 30066803 NM_014323 0 - 30047430 30066142 0 5 1506,138,172,64,1932, 0,2983,9888,17093,18528,
+chr22 30046343 30066803 NM_032050 0 - 30047430 30066142 0 4 1506,172,64,1932, 0,9888,17093,18528,
+chr22 30046343 30066803 NM_032052 0 - 30047815 30066142 0 5 1506,73,172,64,1932, 0,2983,9888,17093,18528,
+chr22 30046343 30066137 AL096880 0 - 30047430 30066067 0 4 1506,172,64,1266, 0,9888,17093,18528,
+chr22 30049563 30050728 BC007304 0 + 30049830 30049956 0 1 1165, 0,
+chr22 30061220 30066803 NM_032051 0 - 30061944 30066142 0 3 1003,64,1932, 0,2216,3651,
+chr22 30064519 30066159 AF242522 0 - 30064867 30066142 0 1 1640, 0,
+chr22 30067428 30069245 AK000471 0 + 30067477 30067882 0 1 1817, 0,
+chr22 30067428 30069245 AK000471 0 + 30067881 30068277 0 1 1817, 0,
+chr22 30120092 30154725 NM_004147 0 + 30120223 30154511 0 9 173,124,176,70,170,131,168,123,314, 0,1067,3476,11459,20703,23727,27062,27507,34319,
+chr22 30155108 30159106 AK127132 0 + 30155341 30155734 0 1 3998, 0,
+chr22 30159903 30210364 BC032941 0 - 30160419 30209258 0 17 758,165,345,133,85,143,80,184,72,197,180,136,176,128,74,123,131, 0,1340,2410,3598,5242,8062,8789,9984,10925,14816,15772,16488,19111,28811,32480,49259,50330,
+chr22 30159908 30210258 NM_019843 0 - 30160419 30209258 0 19 753,165,345,133,85,140,80,184,72,233,180,136,176,202,287,128,74,123,25, 0,1335,2405,3593,5237,8057,8784,9979,10920,14775,15767,16483,19106,23563,24312,28806,32475,49254,50325,
+chr22 30216814 30339087 NM_001007467 0 + 30228824 30338958 0 33 363,122,174,72,111,95,118,103,157,162,71,93,98,67,131,82,179,76,96,77,103,97,161,75,75,177,254,72,232,133,79,112,234, 0,11980,32415,34783,50586,53979,60667,65015,76783,78956,82107,83997,87600,88793,93172,105937,106332,107469,108034,108594,110053,111662,114868,115491,116867,117079,117327,118514,118773,120470,120725,121840,122039,
+chr22 30216814 30339087 NM_014775 0 + 30228824 30338958 0 32 363,122,174,72,111,95,118,103,157,162,71,98,67,131,82,179,76,96,77,103,97,161,75,75,177,254,72,232,133,79,112,234, 0,11980,32415,34783,50586,53979,60667,65015,76783,78956,82107,87600,88793,93172,105937,106332,107469,108034,108594,110053,111662,114868,115491,116867,117079,117327,118514,118773,120470,120725,121840,122039,
+chr22 30334706 30339087 BC033613 0 + 30335176 30338958 0 6 694,232,133,79,112,234, 0,881,2578,2833,3948,4147,
+chr22 30334706 30339087 BC033613 0 + 30335618 30338958 0 6 694,232,133,79,112,234, 0,881,2578,2833,3948,4147,
+chr22 30334910 30339087 AK097004 0 + 30335117 30335870 0 3 2507,79,433, 0,2629,3744,
+chr22 30339034 30351364 NM_014338 0 - 30340151 30346355 0 9 1342,161,147,139,237,166,254,210,19, 0,2058,2501,2839,3154,5189,7268,9508,12311,
+chr22 30339153 30351371 CR596708 0 - 30340329 30346355 0 7 1223,147,139,237,166,254,28, 0,2382,2720,3035,5070,7149,12190,
+chr22 30339933 30382749 CR456540 0 - 30340151 30382748 0 8 443,161,147,139,237,176,80,66, 0,1159,1602,1940,2255,28707,31305,42750,
+chr22 30396795 30433285 NM_173566 0 - 30397287 30432837 0 6 763,72,107,172,72,663, 0,11900,25400,27294,28399,35827,
+chr22 30401889 30432874 BX647272 0 - 30406066 30422218 0 6 4454,72,107,172,72,252, 0,6806,20306,22200,23305,30733,
+chr22 30405581 30434385 AK130944 0 - 30408746 30434187 0 5 762,72,172,72,1763, 0,3114,18508,19613,27041,
+chr22 30474622 30536528 NM_001007188 0 + 30475461 30535969 0 22 82,118,88,47,86,84,50,70,79,62,70,73,104,75,135,62,74,70,37,121,221,573, 0,779,4463,6573,10892,12502,14731,24016,29824,30731,37950,38662,43517,44499,48621,50079,50759,52039,55528,56438,60909,61333,
+chr22 30474622 30627554 NM_014662 0 + 30475461 30627037 0 42 82,118,88,47,86,84,50,70,79,62,70,73,104,75,135,62,74,70,37,121,221,204,136,98,66,157,161,118,168,220,134,109,155,78,133,109,228,170,172,61,83,810, 0,779,4463,6573,10892,12502,14731,24016,29824,30731,37950,38662,43517,44499,48621,50079,50759,52039,55528,56438,60909,64939,67419,68610,79832,82916,84602,89012,89562,90935,92751,103362,116507,119172,120190,122074,125442,139499,143399,147659,151901,152122,
+chr22 30475406 30627153 AJ698950 0 + 30475461 30627037 0 42 113,88,47,86,84,50,70,79,62,70,73,104,75,135,62,74,70,37,121,221,204,136,98,66,157,161,118,168,220,134,109,66,155,78,133,109,228,170,172,61,83,409, 0,3679,5789,10108,11718,13947,23232,29040,29947,37166,37878,42733,43715,47837,49295,49975,51255,54744,55654,60125,64155,66635,67826,79048,82132,83818,88228,88778,90151,91967,102578,106501,115723,118388,119406,121290,124658,138715,142615,146875,151117,151338,
+chr22 30475406 30627153 AJ698951 0 + 30475461 30627037 0 39 113,88,47,86,84,50,70,79,62,70,73,104,75,135,62,74,70,37,121,221,204,93,157,161,118,168,220,134,109,155,78,133,109,228,170,172,61,83,409, 0,3679,5789,10108,11718,13947,23232,29040,29947,37166,37878,42733,43715,47837,49295,49975,51255,54744,55654,60125,64155,79021,82132,83818,88228,88778,90151,91967,102578,115723,118388,119406,121290,124658,138715,142615,146875,151117,151338,
+chr22 30645456 30647549 AK123899 0 + 30645484 30645877 0 1 2093, 0,
+chr22 30654060 30665890 AL050256 0 - 30654657 30658606 0 3 929,200,118, 0,4395,11712,
+chr22 30665032 30678143 NM_003405 0 + 30665273 30677333 0 2 328,1464, 0,11647,
+chr22 30665090 30678143 BC003047 0 + 30676802 30677333 0 2 270,1464, 0,11589,
+chr22 30763812 30831199 NM_000343 0 + 30763822 30830754 0 15 145,72,105,60,105,106,81,221,136,108,151,169,216,106,669, 0,6671,23663,24695,25224,38594,39802,41167,41628,42948,48340,55911,58750,61514,66718,
+chr22 30870074 30879797 NM_001010859 0 - 30870080 30879756 0 9 80,28,161,28,65,28,65,75,273, 0,219,785,1458,1953,2533,3028,4710,9450,
+chr22 30910979 30914020 NM_006605 0 - 30911312 30913728 0 2 914,578, 0,2463,
+chr22 30939018 30975873 NM_014227 0 - 30939054 30975870 0 15 248,103,216,169,151,108,136,221,81,106,105,60,105,72,138, 0,2442,5789,7177,10716,12490,14421,16395,18766,20507,28933,30265,33292,35664,36717,
+chr22 31033631 31036186 AK094244 0 + 31034010 31034373 0 1 2555, 0,
+chr22 31039277 31042963 AK126764 0 + 31039499 31040177 0 1 3686, 0,
+chr22 31078407 31081702 NM_006604 0 + 31078699 31081373 0 2 578,910, 0,2385,
+chr22 31078483 31081431 BC069753 0 + 31078612 31081373 0 2 502,639, 0,2309,
+chr22 31080448 31091617 BC031635 0 - 31080601 31080925 0 5 932,87,25,71,178, 0,3064,7782,8589,10991,
+chr22 31080448 31091617 BC031635 0 - 31081294 31091467 0 5 932,87,25,71,178, 0,3064,7782,8589,10991,
+chr22 31080448 31091526 AJ010233 0 - 31081294 31091467 0 4 932,25,71,87, 0,7782,8589,10991,
+chr22 31108122 31132787 NM_014306 0 - 31108532 31132697 0 12 518,120,111,189,176,160,157,157,100,68,79,183, 0,4658,6310,7444,8492,10359,12021,14165,19080,20593,21173,24482,
+chr22 31134843 31177927 NM_174932 0 - 31134843 31177927 0 15 123,77,64,43,68,171,54,177,92,61,64,156,129,121,124, 0,1612,2782,5059,17044,18070,19416,21401,23457,28368,31332,31538,32909,39080,42960,
+chr22 31195263 31219369 NM_012179 0 + 31195543 31219071 0 9 402,295,228,142,84,96,177,38,685, 0,4258,9174,10345,13022,16363,18382,20770,23421,
+chr22 31233093 31727237 NM_003490 0 - 31234232 31727201 0 13 1272,292,88,135,103,77,141,63,90,160,92,58,347, 0,5490,15365,16321,21239,25482,29019,84120,352362,356413,418835,468090,493797,
+chr22 31233953 31778883 AB209684 0 - 31234232 31727201 0 14 412,292,88,135,103,75,143,63,90,157,92,58,473,52, 0,4630,14505,15461,20379,24622,28157,83260,351502,355553,417975,467230,492937,544878,
+chr22 31234196 31727227 BC075065 0 - 31234232 31727201 0 13 169,292,88,135,103,75,143,63,90,160,92,58,337, 0,4387,14262,15218,20136,24379,27914,83017,351259,355310,417732,466987,492694,
+chr22 31521361 31583581 NM_000362 0 + 31522541 31579918 0 5 1301,83,112,122,3861, 0,48631,56428,57196,58359,
+chr22 31522259 31581094 CR613766 0 + 31522541 31579890 0 5 403,83,112,97,1406, 0,47733,55530,56298,57429,
+chr22 31522259 31581434 CR603101 0 + 31522541 31579890 0 5 403,83,112,122,1721, 0,47733,55530,56298,57454,
+chr22 31993616 32640964 NM_004737 0 - 31994966 32482017 0 16 1548,196,147,279,164,156,126,113,105,172,124,83,302,188,63,428, 0,3983,10125,31152,43008,64569,108842,111115,159084,291771,331358,353165,377290,488295,583665,646920,
+chr22 33786683 33807932 NM_001008494 0 + 33787634 33806240 0 4 1180,152,117,1932, 0,16381,18246,19317,
+chr22 33978042 34016353 NM_001003681 0 + 33982937 34014198 0 11 62,99,149,79,956,82,65,106,170,123,2200, 0,4827,5582,6300,7152,26466,28501,29851,30742,35496,36111,
+chr22 33978042 34016353 NM_005487 0 + 33985262 34014198 0 12 62,99,149,79,115,956,82,65,106,170,123,2200, 0,4827,5582,6300,6486,7152,26466,28501,29851,30742,35496,36111,
+chr22 34020414 34068527 NM_005488 0 + 34020475 34067756 0 15 113,85,79,150,135,147,117,134,34,94,121,76,60,40,926, 0,18009,22091,23160,23628,23900,27403,30479,33113,33536,34460,38845,45857,47062,47187,
+chr22 34020472 34068519 BC046151 0 + 34020475 34067756 0 15 55,85,79,150,135,147,117,134,34,94,121,76,60,43,918, 0,17951,22033,23102,23570,23842,27345,30421,33055,33478,34402,38787,45799,47004,47129,
+chr22 34101640 34114748 NM_002133 0 + 34101720 34114145 0 5 103,121,492,100,734, 0,2012,5591,8770,12374,
+chr22 34120681 34145048 NM_006739 0 + 34120985 34144802 0 17 74,175,127,129,173,156,167,172,112,144,66,177,113,129,143,128,348, 0,296,3072,3279,6418,8273,10609,12375,13740,15694,16204,16503,17609,19749,21183,23079,24019,
+chr22 34261851 34274543 NM_014310 0 + 34267356 34272579 0 3 196,280,2494, 0,5496,10198,
+chr22 34267320 34274543 AF279143 0 + 34267320 34272579 0 2 307,2494, 0,4729,
+chr22 34327310 34343901 NM_203377 0 - 34327843 34337804 0 4 680,223,103,164, 0,4120,10399,16427,
+chr22 34327311 34337876 BC014547 0 - 34327843 34331583 0 3 679,223,167, 0,4119,10398,
+chr22 34347539 34355682 NM_203375 0 - 34347988 34355526 0 2 667,181, 0,7962,
+chr22 34368941 34381904 BC047864 0 + 34376972 34380143 0 3 229,97,2743, 0,7984,10220,
+chr22 34368941 34381904 BC047864 0 + 34379345 34380143 0 3 229,97,2743, 0,7984,10220,
+chr22 34386705 34388953 AK097266 0 + 34386840 34387227 0 1 2248, 0,
+chr22 34438418 34450030 NM_030642 0 + 34438418 34449445 0 5 55,87,984,182,130, 0,2696,8339,10851,11482,
+chr22 34464148 34560928 NM_014309 0 - 34464741 34560765 0 12 648,73,89,133,93,54,61,93,54,147,225,190, 0,2321,2871,16286,17600,17813,21821,24655,34423,37998,66178,96590,
+chr22 34464489 34560954 BC013115 0 - 34464751 34560765 0 12 307,73,89,40,133,93,54,61,93,144,225,216, 0,1980,2530,12162,15945,17259,17472,21480,24314,37657,65837,96249,
+chr22 34464544 34560954 BC025281 0 - 34464751 34560765 0 13 252,73,89,40,145,93,54,61,93,54,144,225,216, 0,1925,2475,12107,15890,17204,17417,21425,24259,34027,37602,65782,96194,
+chr22 34464621 34749049 AK055213 0 - 34464751 34748793 0 14 175,73,89,40,145,93,54,61,93,54,144,225,51,262, 0,1848,2398,12030,15813,17127,17340,21348,24182,33950,37525,65705,194773,284166,
+chr22 34464621 34749049 AK055213 0 - 34464751 34748973 0 14 175,73,89,40,145,93,54,61,93,54,144,225,51,262, 0,1848,2398,12030,15813,17127,17340,21348,24182,33950,37525,65705,194773,284166,
+chr22 34464694 34560831 CR456559 0 - 34464751 34560765 0 13 102,73,89,40,133,93,54,61,93,54,144,225,93, 0,1775,2325,11957,15740,17054,17267,21275,24109,33877,37452,65632,96044,
+chr22 34664472 34665741 AK130887 0 - 34665082 34665454 0 1 1269, 0,
+chr22 34860876 34886725 NM_145641 0 - 34861747 34862356 0 5 1730,127,121,63,1586, 0,5144,20340,21155,24263,
+chr22 34860876 34881477 NM_014349 0 - 34861747 34869603 0 4 1730,127,326,261, 0,5144,8717,20340,
+chr22 34860876 34881477 NM_145640 0 - 34861747 34881439 0 3 1730,127,261, 0,5144,20340,
+chr22 34909676 34925379 AY014914 0 - 34911622 34912204 0 6 2782,127,47,189,63,206, 0,6180,10199,12569,12862,15497,
+chr22 34918001 34925289 BC006276 0 - 34918188 34922280 0 6 376,47,53,189,63,116, 0,1874,2100,4244,4537,7172,
+chr22 34946754 34960500 NM_145637 0 - 34947949 34953708 0 6 2072,127,89,54,121,223, 0,5131,6944,7193,13232,13523,
+chr22 34973623 34988077 NM_145343 0 + 34974508 34986579 0 7 142,154,63,54,89,127,2381, 0,760,1859,4005,4241,8518,12073,
+chr22 34973623 34988077 NM_003661 0 + 34975501 34986579 0 6 142,63,54,89,127,2381, 0,1859,4005,4241,8518,12073,
+chr22 34973625 34988067 AF019225 0 + 34977629 34986579 0 6 140,63,54,89,127,2371, 0,1857,4003,4239,8516,12071,
+chr22 35001826 35108481 NM_002473 0 - 35003213 35069781 0 41 1505,173,109,209,124,89,129,162,213,213,249,153,105,207,145,213,172,124,138,207,132,109,161,70,122,194,115,174,174,153,119,96,144,99,64,93,94,28,157,352,130, 0,2812,3122,3840,4377,4584,5437,6971,7446,7804,10705,12048,12478,12811,13651,14224,15562,17638,18846,19570,20253,21287,22714,23752,24649,25133,28000,30767,32863,35235,36925,38258,38938,39516,40476,41147,45286,46179,60088,67622,106525,
+chr22 35045577 35085657 BC090921 0 - 35045623 35069781 0 6 91,94,28,157,352,67, 0,1535,2428,16337,23871,40013,
+chr22 35187592 35202187 NM_012473 0 - 35188350 35201384 0 4 872,124,263,77, 0,9687,13529,14518,
+chr22 35187595 35189599 AK123361 0 - 35188870 35189590 0 1 2004, 0,
+chr22 35208795 35227569 NM_024955 0 - 35210554 35226969 0 9 2019,171,242,166,167,270,252,528,111, 0,5384,7718,9742,12992,15849,16266,17647,18663,
+chr22 35208795 35227569 BC027716 0 - 35210554 35224712 0 9 2019,171,242,166,167,270,252,528,111, 0,5384,7718,9742,12992,15849,16266,17647,18663,
+chr22 35231397 35249983 NM_003753 0 - 35231533 35246668 0 15 150,284,143,130,86,131,148,133,113,73,86,137,46,133,361, 0,652,1609,5627,5854,6450,7912,8554,9725,12358,13044,13745,14813,15148,18225,
+chr22 35284603 35423403 NM_006078 0 - 35284897 35423121 0 4 830,141,84,493, 0,2296,23408,138307,
+chr22 35348208 35351173 AK055082 0 - 35350249 35350669 0 1 2965, 0,
+chr22 35478754 35496614 NM_006860 0 - 35478854 35496251 0 7 199,110,118,60,60,77,397, 0,4693,5708,7927,9095,9572,17463,
+chr22 35478754 35496655 BC000566 0 - 35478854 35496251 0 7 199,110,118,60,60,80,438, 0,4693,5708,7927,9095,9572,17463,
+chr22 35521245 35540017 NM_002854 0 - 35521433 35537549 0 5 217,110,133,68,43, 0,12944,14401,16243,18729,
+chr22 35581544 35598558 NM_000631 0 + 35581713 35598365 0 10 201,85,154,71,128,58,99,131,66,389, 0,3042,3916,6389,9412,10649,11324,14650,15026,16625,
+chr22 35581544 35598558 NM_013416 0 + 35581713 35596614 0 9 201,85,154,71,128,58,99,442,389, 0,3042,3916,6389,9412,10649,11324,14650,16625,
+chr22 35634174 35660985 BC070085 0 + 35642749 35659775 0 15 45,248,124,191,158,169,136,158,140,163,91,58,104,1060,1252, 0,8403,9611,12354,15769,16006,16742,17040,19132,20199,21718,21997,22916,23744,25559,
+chr22 35642676 35659153 CR456428 0 + 35642749 35659044 0 13 149,124,191,158,169,136,176,140,163,91,58,104,1235, 0,1109,3852,7267,7504,8240,8520,10630,11697,13216,13495,14414,15242,
+chr22 35642721 35659318 NM_000395 0 + 35642749 35659044 0 13 104,124,191,158,169,136,158,140,163,91,58,104,1400, 0,1064,3807,7222,7459,8195,8493,10585,11652,13171,13450,14369,15197,
+chr22 35685788 35688713 AK130379 0 + 35685852 35687757 0 4 266,118,421,187, 0,1142,1920,2738,
+chr22 35711672 35728339 NM_178552 0 - 35711719 35722611 0 6 145,111,145,448,60,70, 0,349,8708,10705,12834,16597,
+chr22 35711696 35728343 CR456416 0 - 35711719 35724528 0 6 121,111,145,467,60,74, 0,325,8684,10681,12810,16573,
+chr22 35731406 35739991 NM_003312 0 - 35731567 35739273 0 3 460,616,51, 0,7272,8534,
+chr22 35740201 35750362 NM_001013440 0 + 35744756 35750055 0 4 212,176,619,606, 0,4091,4531,9555,
+chr22 35772115 35783930 NM_024681 0 + 35772300 35783134 0 8 374,109,92,96,126,100,91,866, 0,1524,4744,5822,7737,9247,9963,10949,
+chr22 35772292 35783927 BC031038 0 + 35772300 35783134 0 9 197,109,92,96,126,100,72,91,863, 0,1347,4567,5645,7560,9070,9351,9786,10772,
+chr22 35785322 35788024 AK055306 0 + 35785775 35786195 0 1 2702, 0,
+chr22 35785975 35824193 AY055384 0 - 35786619 35823957 0 18 803,137,272,169,117,114,99,146,110,113,137,205,42,185,68,134,203,140, 0,1390,3637,5048,5480,8096,9174,9699,18859,19291,20847,24142,30115,30470,31212,32980,37780,38078,
+chr22 35785978 35824193 NM_153609 0 - 35786619 35824079 0 18 800,137,272,169,117,114,99,146,110,113,137,205,42,185,68,134,203,140, 0,1387,3634,5045,5477,8093,9171,9696,18856,19288,20844,24139,30112,30467,31209,32977,37777,38075,
+chr22 35786465 35830103 CR456446 0 - 35786619 35823957 0 19 313,137,66,272,169,117,114,99,146,110,113,137,205,42,185,68,134,203,61, 0,900,2690,3147,4558,4990,7606,8684,9209,18369,18801,20357,23652,29625,29980,30722,32490,37290,43577,
+chr22 35804480 35824196 BC039082 0 - 35804671 35823957 0 10 464,113,137,205,42,185,68,134,203,143, 0,786,2342,5637,11610,11965,12707,14475,19275,19573,
+chr22 35804480 35824196 BC039082 0 - 35804671 35824079 0 10 464,113,137,205,42,185,68,134,203,143, 0,786,2342,5637,11610,11965,12707,14475,19275,19573,
+chr22 35846381 35870462 NM_000878 0 - 35848635 35864712 0 10 3007,85,115,166,149,106,79,115,121,98, 0,6542,9486,10386,11745,13275,16592,17679,18243,23983,
+chr22 35900705 35908830 NM_031910 0 - 35902727 35908753 0 3 2570,238,128, 0,5052,7997,
+chr22 35900706 35918841 AK128125 0 - 35902727 35903345 0 9 701,431,92,238,176,314,64,66,2921, 0,1985,2569,5051,5704,7996,10698,11505,15214,
+chr22 35900708 35908829 BC020551 0 - 35902727 35905989 0 3 2567,238,127, 0,5049,7994,
+chr22 35926744 35932853 NM_001051 0 - 35927085 35928342 0 2 1634,489, 0,5620,
+chr22 35945811 35964805 NM_002872 0 - 35947212 35964688 0 7 768,133,160,63,118,72,152, 0,1399,5959,6660,7529,16315,18842,
+chr22 36002923 36035880 NM_013385 0 + 36003110 36034052 0 13 206,83,65,67,119,81,113,149,112,77,72,155,1901, 0,10238,12277,13616,15181,16843,18524,20871,26829,28605,29073,29637,31056,
+chr22 36003055 36018913 BC017780 0 + 36003110 36018227 0 5 74,83,65,67,809, 0,10106,12145,13484,15049,
+chr22 36021511 36035880 AK002145 0 + 36023826 36034052 0 7 49,149,112,77,72,155,1901, 0,2283,8241,10017,10485,11049,12468,
+chr22 36072733 36075379 BC043218 0 - 36074339 36074843 0 2 247,1714, 0,932,
+chr22 36088500 36096079 NM_052906 0 - 36093611 36096074 0 1 7579, 0,
+chr22 36189602 36206885 NM_002405 0 - 36190500 36206715 0 8 965,86,166,86,154,103,49,425, 0,3378,5447,7831,10280,11132,11656,16858,
+chr22 36210900 36239710 NM_014550 0 - 36211696 36239707 0 20 1031,113,116,159,103,70,244,112,160,124,29,116,135,192,126,156,210,326,138,238, 0,1361,2041,2250,3692,5123,5366,6055,6625,12208,12791,13792,14241,15798,17435,18133,19818,25579,27577,28572,
+chr22 36210902 36229656 AK074906 0 - 36211696 36229565 0 17 1029,113,116,159,103,70,244,112,160,124,29,116,135,192,126,156,142, 0,1359,2039,2248,3690,5121,5364,6053,6623,12206,12789,13790,14239,15796,17433,18131,18612,
+chr22 36280999 36289908 NM_152243 0 + 36286856 36289327 0 3 96,741,1294, 0,5579,7615,
+chr22 36281000 36289908 BC009356 0 + 36286856 36289327 0 4 95,741,297,976, 0,5578,7614,7932,
+chr22 36290753 36300524 NM_006498 0 - 36290769 36300412 0 4 166,160,83,118, 0,329,1602,9653,
+chr22 36329002 36354070 NM_013365 0 + 36329367 36353218 0 17 408,85,76,99,124,101,81,141,82,108,153,65,173,197,170,111,963, 0,5694,8426,9952,11742,12317,13120,14831,15056,16473,17301,20966,21502,22407,23500,23909,24105,
+chr22 36329002 36354070 NM_001001560 0 + 36329367 36353218 0 15 408,85,76,99,124,101,81,141,82,65,173,197,170,111,963, 0,5694,8426,9952,11742,12317,13120,14831,15056,20966,21502,22407,23500,23909,24105,
+chr22 36329002 36338627 NM_001001561 0 + 36329367 36337570 0 3 408,85,1199, 0,5694,8426,
+chr22 36329231 36353307 CR456493 0 + 36329367 36353218 0 17 179,85,127,99,124,101,81,141,82,108,153,65,173,197,170,111,200, 0,5465,8197,9723,11513,12088,12891,14602,14827,16244,17072,20737,21273,22178,23271,23680,23876,
+chr22 36355160 36376549 AK124370 0 + 36360294 36370635 0 20 200,797,43,105,77,112,77,145,69,91,146,112,82,81,117,164,184,95,44,117, 0,4396,6472,6720,7885,8241,8444,8990,9983,10216,10711,12164,12613,12787,13665,15432,15888,19125,20618,21272,
+chr22 36355160 36376549 AK124370 0 + 36361970 36370635 0 20 200,797,43,105,77,112,77,145,69,91,146,112,82,81,117,164,184,95,44,117, 0,4396,6472,6720,7885,8241,8444,8990,9983,10216,10711,12164,12613,12787,13665,15432,15888,19125,20618,21272,
+chr22 36359981 36387439 AK126873 0 + 36361970 36386378 0 18 202,144,105,77,112,77,145,69,91,146,112,82,81,117,98,184,95,1378, 0,228,1899,3064,3420,3623,4169,5162,5395,5890,7343,7792,7966,8844,10677,11067,14304,26080,
+chr22 36360183 36376493 CR594688 0 + 36360294 36376191 0 18 170,43,105,77,112,77,145,69,91,146,112,82,81,117,98,184,95,715, 0,1449,1697,2862,3218,3421,3967,4960,5193,5688,7141,7590,7764,8642,10475,10865,14102,15595,
+chr22 36361877 36376545 NM_018957 0 + 36363078 36376191 0 16 108,77,112,77,145,69,91,146,112,82,81,117,98,184,95,767, 0,1168,1524,1727,2273,3266,3499,3994,5447,5896,6070,6948,8781,9171,12408,13901,
+chr22 36367813 36376541 AL157480 0 + 36367814 36376191 0 7 42,81,117,98,184,95,763, 0,134,1012,2845,3235,6472,7965,
+chr22 36379237 36387439 NM_020315 0 + 36379289 36386378 0 2 626,1378, 0,6824,
+chr22 36396142 36400307 NM_002305 0 + 36396209 36400256 0 4 76,80,172,198, 0,1350,2847,3967,
+chr22 36406866 36413978 NM_024313 0 + 36406899 36411843 0 7 116,106,49,143,98,251,140, 0,1550,1952,2490,4337,4814,6972,
+chr22 36466747 36495016 NM_007032 0 + 36466921 36493269 0 14 180,57,108,90,110,526,111,148,103,160,114,87,164,727, 0,5531,8636,8860,9309,11372,12913,19429,21833,22787,23021,25409,26360,27542,
+chr22 36525935 36526726 CR456502 0 + 36526051 36526636 0 1 791, 0,
+chr22 36528444 36537683 AK123190 0 + 36528474 36537225 0 10 226,209,102,147,155,83,172,122,159,248, 0,2011,4949,5525,7188,7480,7725,8262,8629,8991,
+chr22 36528454 36537403 NM_014291 0 + 36528474 36537225 0 9 216,131,102,147,155,83,172,122,330, 0,2079,4939,5515,7178,7470,7715,8252,8619,
+chr22 36543888 36546002 NM_003614 0 + 36543913 36545977 0 2 384,773, 0,1341,
+chr22 36551362 36564803 NM_138797 0 - 36552449 36564745 0 8 1162,108,125,48,72,99,48,386, 0,1781,2102,2303,2828,7644,9331,13055,
+chr22 36551362 36555235 AK127583 0 - 36552449 36554244 0 5 1162,108,249,72,812, 0,1781,2102,2828,3061,
+chr22 36569817 36609070 CR456436 0 + 36569827 36608971 0 13 172,49,211,80,62,70,74,172,155,171,498,81,138, 0,704,1969,6254,9368,13658,13961,20865,25059,26530,28363,37454,39115,
+chr22 36569869 36609137 NM_016091 0 + 36569956 36608971 0 13 120,49,211,80,62,70,74,172,155,171,498,81,205, 0,652,1917,6202,9316,13606,13909,20813,25007,26478,28311,37402,39063,
+chr22 36569940 36609137 BC001101 0 + 36598231 36608971 0 13 49,49,211,80,62,70,74,172,155,171,498,81,205, 0,581,1846,6131,9245,13535,13838,20742,24936,26407,28240,37331,38992,
+chr22 36579217 36609137 AK098457 0 + 36594926 36608971 0 9 30,70,74,172,155,171,498,81,205, 0,4258,4561,11465,15659,17130,18963,28054,29715,
+chr22 36626845 36662525 NM_033386 0 + 36626929 36661337 0 16 230,49,142,89,143,455,58,383,416,135,127,91,74,115,47,1310, 0,5613,6012,11368,12697,15633,18321,19322,21072,25460,26214,26459,26700,30741,31407,34370,
+chr22 36627000 36662515 AL834373 0 + 36648171 36661337 0 16 75,49,142,89,143,455,58,383,416,135,127,91,74,115,47,1300, 0,5458,5857,11213,12542,15478,18166,19167,20917,25305,26059,26304,26545,30586,31252,34215,
+chr22 36663556 36665405 AK097339 0 + 36663590 36663953 0 1 1849, 0,
+chr22 36664032 36674103 NM_032561 0 - 36664681 36673656 0 7 721,101,132,183,63,112,248, 0,891,1516,3755,7934,9521,9823,
+chr22 36674217 36688306 NM_021974 0 + 36674294 36688222 0 5 97,70,131,72,175, 0,3062,5635,13388,13914,
+chr22 36692819 36705039 NM_006941 0 - 36694001 36704291 0 4 1886,269,512,194, 0,5554,11044,12026,
+chr22 36706675 36708666 AK098727 0 + 36706968 36707868 0 1 1991, 0,
+chr22 36710151 36729364 AK124758 0 + 36710219 36710705 0 2 2846,513, 0,18700,
+chr22 36777902 36796207 NM_012407 0 + 36778316 36795639 0 13 192,98,112,129,67,90,54,63,134,93,51,145,837, 0,357,1838,7606,10308,11637,13442,14286,15081,15604,16377,16911,17468,
+chr22 36798644 36803649 NM_013356 0 - 36798894 36803380 0 5 567,840,144,222,101, 0,2702,3751,4522,4904,
+chr22 36805409 36831152 NM_025045 0 - 36805806 36831032 0 15 473,47,105,61,141,217,136,153,147,117,72,62,87,76,171, 0,783,1339,1486,2221,3845,4193,4619,12129,13160,13508,22949,23352,24230,25572,
+chr22 36805409 36831176 AY358164 0 - 36805806 36831032 0 14 473,47,208,141,217,136,153,147,117,72,62,87,76,195, 0,783,1339,2221,3845,4193,4619,12129,13160,13508,22949,23352,24230,25572,
+chr22 36812167 36831132 AK026235 0 - 36814420 36831032 0 9 638,250,147,117,72,62,87,76,151, 0,2051,5371,6402,6750,16191,16594,17472,18814,
+chr22 36832002 36902261 NM_003560 0 - 36832667 36889933 0 17 810,74,168,155,137,151,164,79,162,109,183,97,188,184,216,254,91, 0,1008,1991,4031,4579,9263,11599,14875,16773,17958,21335,23492,28486,31609,33942,57722,70168,
+chr22 36832002 36902261 NM_001004426 0 - 36832667 36889933 0 16 810,74,168,155,137,151,164,79,109,183,97,188,184,216,254,91, 0,1008,1991,4031,4579,9263,11599,14875,17958,21335,23492,28486,31609,33942,57722,70168,
+chr22 36922497 36937012 NM_012323 0 + 36934360 36935385 0 3 222,67,2086, 0,11832,12429,
+chr22 36939804 36993496 NM_012264 0 - 36941975 36968365 0 9 2413,195,170,92,76,91,166,250,107, 0,5487,6126,7481,11370,11945,26636,28471,53585,
+chr22 36939804 36993496 BC015489 0 - 36941975 36968467 0 9 2413,195,170,92,76,91,166,250,107, 0,5487,6126,7481,11370,11945,26636,28471,53585,
+chr22 37011197 37037913 NM_152221 0 - 37013792 37034662 0 11 1247,65,140,193,149,171,229,149,111,88,249, 0,2563,3417,3650,8093,9202,10031,12168,12445,23389,26467,
+chr22 37146831 37175703 NM_152868 0 - 37147299 37148637 0 2 1845,218, 0,28654,
+chr22 37188582 37203945 NM_006855 0 + 37188738 37203041 0 5 247,101,159,253,945, 0,6445,11515,13134,14418,
+chr22 37203942 37209466 NM_030881 0 - 37206439 37208423 0 2 3003,1089, 0,4435,
+chr22 37203942 37226816 NM_006386 0 - 37206439 37226742 0 13 3003,237,60,62,111,173,161,142,66,134,100,151,361, 0,4441,8618,10272,10583,11192,11448,12358,14647,15002,15962,17692,22513,
+chr22 37206206 37226792 BC000595 0 - 37206439 37226505 0 13 739,237,60,62,111,173,161,142,66,134,100,151,337, 0,2177,6354,8008,8319,8928,9184,10094,12383,12738,13698,15428,20249,
+chr22 37206293 37226535 CR456432 0 - 37206439 37226505 0 13 652,243,60,62,111,173,161,142,66,134,100,151,80, 0,2084,6267,7921,8232,8841,9097,10007,12296,12651,13611,15341,20162,
+chr22 37239453 37290689 NM_007068 0 - 37240524 37288761 0 14 1141,117,61,115,74,92,73,42,53,83,147,45,84,142, 0,2659,18643,19346,19590,20372,30976,33717,36408,43338,47641,48634,49257,51094,
+chr22 37266272 37290689 BC035658 0 - 37270425 37288761 0 9 363,636,42,53,83,147,45,84,142, 0,3594,6898,9589,16519,20822,21815,22438,24275,
+chr22 37377157 37394353 NM_001002880 0 + 37388559 37393741 0 6 98,140,116,106,119,690, 0,8893,11364,14231,14417,16506,
+chr22 37392474 37396978 AK128685 0 - 37396195 37396636 0 2 22,3856, 0,648,
+chr22 37402453 37405263 NM_020243 0 + 37402483 37404346 0 4 147,119,118,992, 0,374,930,1818,
+chr22 37406126 37420769 NM_014876 0 - 37408406 37420492 0 4 2380,195,129,462, 0,3313,3674,14181,
+chr22 37426468 37452744 NM_004286 0 + 37429412 37451209 0 12 184,112,181,349,124,115,145,183,136,179,201,1628, 0,2881,9943,10688,15778,18333,20042,20294,21249,22019,23498,24648,
+chr22 37426468 37452738 BC014075 0 + 37426487 37451209 0 12 184,112,181,349,124,115,145,183,136,179,201,1622, 0,2881,9943,10688,15778,18333,20042,20294,21249,22019,23498,24648,
+chr22 37453534 37454080 BC046350 0 + 37453783 37454068 0 1 546, 0,
+chr22 37455234 37476447 NM_015374 0 - 37456771 37473133 0 18 1651,93,168,116,85,222,166,44,78,255,128,71,94,96,138,164,159,180, 0,3443,3857,4143,4612,4992,5537,6277,6764,7571,10954,13983,15036,15495,16168,16480,17777,21033,
+chr22 37455242 37476482 BC094797 0 - 37456771 37473133 0 18 1643,93,168,116,85,222,166,44,78,255,128,71,94,159,138,164,159,215, 0,3435,3849,4135,4604,4984,5529,6269,6756,7563,10946,13975,15028,15487,16160,16472,17769,21025,
+chr22 37499013 37514661 NM_005740 0 - 37499953 37503236 0 4 1105,84,208,89, 0,2417,4154,15559,
+chr22 37538956 37564517 NM_014293 0 - 37543113 37564363 0 5 4382,180,248,226,778, 0,4631,8048,9835,24783,
+chr22 37538956 37564517 NM_058178 0 - 37543113 37564363 0 5 4382,180,248,223,778, 0,4631,8048,9835,24783,
+chr22 37584749 37592758 NM_014292 0 - 37586713 37592695 0 5 2957,67,66,44,132, 0,7235,7447,7657,7877,
+chr22 37678122 37683688 NM_145699 0 + 37678196 37683014 0 5 103,145,295,116,689, 0,1924,3769,4480,4877,
+chr22 37702904 37713283 NM_004900 0 + 37702958 37712950 0 8 71,157,280,115,154,295,116,348, 0,1675,3412,3898,7057,8932,9634,10031,
+chr22 37702908 37713264 BC053859 0 + 37702958 37712023 0 7 67,157,280,115,295,116,329, 0,1671,3408,3894,8928,9630,10027,
+chr22 37734764 37739323 NM_014508 0 + 37734867 37738892 0 4 120,157,280,550, 0,1335,3506,4009,
+chr22 37741956 37752872 CR456396 0 + 37742024 37752821 0 4 85,193,280,170, 0,1370,10242,10746,
+chr22 37761172 37764927 NM_001006666 0 + 37761465 37764722 0 3 310,154,340, 0,2269,3415,
+chr22 37761172 37774414 NM_145298 0 + 37761465 37773200 0 7 310,154,280,115,157,280,1333, 0,2269,4273,4760,8757,11406,11909,
+chr22 37797625 37800203 BC061914 0 + 37797866 37799659 0 2 258,767, 0,1811,
+chr22 37797635 37808247 NM_021822 0 + 37797866 37807926 0 8 248,154,295,115,154,289,116,336, 0,1801,3802,4340,6600,9148,9880,10276,
+chr22 37800166 37803184 AK093635 0 + 37801467 37802094 0 2 1566,1209, 0,1809,
+chr22 37817743 37824570 BC069023 0 + 37820783 37824202 0 5 105,157,265,128,374, 0,3033,3998,4676,6453,
+chr22 37817789 37824500 NM_181773 0 + 37820783 37824202 0 5 59,157,265,128,307, 0,2987,3952,4630,6404,
+chr22 37851280 37873038 NM_175709 0 - 37854395 37872949 0 6 3273,352,67,66,44,158, 0,3625,7860,10595,19013,21600,
+chr22 37857203 37861689 AK124238 0 - 37861118 37861532 0 2 787,1577, 0,2909,
+chr22 37893137 37895174 AK074445 0 - 37894541 37894928 0 1 2037, 0,
+chr22 37944218 37961419 NM_033016 0 - 37946227 37961377 0 7 1600,153,145,206,90,97,60, 0,1981,6370,7908,9721,12064,17141,
+chr22 37944218 37965490 NM_002608 0 - 37946227 37964468 0 7 1600,153,145,206,90,97,1085, 0,1981,6370,7908,9721,12064,20187,
+chr22 37950588 37961414 X83705 0 - 37956342 37961385 0 5 145,206,90,97,55, 0,1538,3351,5694,10771,
+chr22 38033389 38040128 NM_000967 0 - 38033444 38040102 0 10 100,120,96,102,161,187,136,169,193,29, 0,306,749,1222,1801,2484,3821,4576,5515,6710,
+chr22 38033391 38035470 AY320405 0 - 38033479 38033997 0 3 98,1018,280, 0,304,1799,
+chr22 38070453 38098886 NM_145731 0 + 38070515 38098195 0 4 161,238,146,784, 0,24367,26103,27649,
+chr22 38070453 38106080 NM_004711 0 + 38070515 38102419 0 4 161,238,146,3880, 0,24367,26103,31747,
+chr22 38084674 38098416 NM_145738 0 + 38084699 38098195 0 4 127,238,146,314, 0,10146,11882,13428,
+chr22 38120258 38152385 NM_006116 0 + 38120307 38150727 0 11 82,137,154,87,139,114,112,145,223,163,1866, 0,15252,15746,17037,17957,18978,19765,22073,26949,28267,30261,
+chr22 38120258 38157632 NM_153497 0 + 38120307 38157076 0 11 82,137,154,87,139,114,112,145,223,163,638, 0,15252,15746,17037,17957,18978,19765,22073,26949,28267,36736,
+chr22 38178037 38209487 BC075025 0 + 38207852 38209454 0 2 25,1636, 0,29814,
+chr22 38195945 38198053 AF289562 0 + 38196713 38197046 0 1 2108, 0,
+chr22 38207850 38209939 D13789 0 + 38207858 38209454 0 1 2089, 0,
+chr22 38220604 38236212 AL136768 0 + 38231799 38235878 0 7 158,332,151,178,263,708,478, 0,4103,11188,11749,12132,13417,15130,
+chr22 38222783 38238636 NM_019008 0 + 38231799 38234828 0 6 159,332,151,178,263,4615, 0,1924,9009,9570,9953,11238,
+chr22 38222806 38236885 AL834205 0 + 38231799 38232947 0 6 136,332,151,178,177,2864, 0,1901,8986,9547,10016,11215,
+chr22 38222880 38236666 BC008327 0 + 38232948 38234828 0 6 62,332,151,178,263,2645, 0,1827,8912,9473,9856,11141,
+chr22 38236371 38238638 CR615640 0 + 38238030 38238507 0 1 2267, 0,
+chr22 38241068 38243191 NM_001675 0 + 38241950 38243107 0 2 1108,914, 0,1209,
+chr22 38249598 38253360 NM_194326 0 - 38249996 38253243 0 4 530,98,129,169, 0,726,3301,3593,
+chr22 38291257 38410238 NM_021096 0 + 38291257 38406910 0 37 236,112,134,98,160,316,93,313,105,425,152,186,118,156,94,203,471,101,124,69,185,127,126,90,193,152,110,134,71,79,122,339,147,123,166,197,3973, 0,27398,29767,48557,63812,70114,72044,75816,77069,78748,87399,88178,88680,88944,89591,90355,91212,92023,92965,93338,93986,94745,95128,97539,99285,100050,101446,102196,103210,106588,107234,108354,108969,110177,111743,113549,115008,
+chr22 38291257 38410238 NM_001003406 0 + 38291257 38406910 0 36 236,112,134,98,160,316,93,313,425,152,186,118,156,94,203,471,101,124,69,185,127,126,90,193,152,110,134,71,79,122,339,147,123,166,197,3973, 0,27398,29767,48557,63812,70114,72044,75816,78748,87399,88178,88680,88944,89591,90355,91212,92023,92965,93338,93986,94745,95128,97539,99285,100050,101446,102196,103210,106588,107234,108354,108969,110177,111743,113549,115008,
+chr22 38291257 38405716 AF129133 0 + 38291257 38405027 0 36 236,112,134,98,160,316,93,313,105,425,152,186,118,156,94,203,471,101,124,69,185,127,126,90,193,152,110,134,71,79,122,339,147,123,166,910, 0,27398,29767,48557,63812,70114,72044,75816,77069,78748,87399,88178,88680,88944,89591,90355,91212,92023,92965,93338,93986,94745,95128,97539,99285,100050,101446,102196,103210,106588,107234,108354,108969,110177,111743,113549,
+chr22 38291257 38405033 AF211189 0 + 38291257 38405027 0 35 236,112,134,98,160,316,93,313,425,152,186,118,156,94,203,471,101,124,69,185,127,126,90,193,152,110,134,71,79,122,339,147,123,166,227, 0,27398,29767,48557,63812,70114,72044,75816,78748,87399,88178,88680,88944,89591,90355,91212,92023,92965,93338,93986,94745,95128,97539,99285,100050,101446,102196,103210,106588,107234,108354,108969,110177,111743,113549,
+chr22 38463549 38614294 NM_152512 0 - 38464183 38608252 0 7 1239,387,121,119,243,504,96, 0,22178,77948,92795,118720,144354,150649,
+chr22 38463549 38614294 BC033895 0 - 38464183 38485761 0 7 1239,387,121,119,243,504,96, 0,22178,77948,92795,118720,144354,150649,
+chr22 38463549 38614294 BC033895 0 - 38464183 38556398 0 7 1239,387,121,119,243,504,96, 0,22178,77948,92795,118720,144354,150649,
+chr22 38621585 38691884 NM_004810 0 + 38667610 38691588 0 8 249,92,92,120,169,231,123,476, 0,46011,54737,58973,64908,66960,68329,69823,
+chr22 38715452 38750332 BC031099 0 + 38715546 38750069 0 5 583,168,122,674,313, 0,24219,24938,26341,34567,
+chr22 38730191 38750543 NM_138435 0 + 38739686 38750069 0 5 437,168,122,674,524, 0,9480,10199,11602,19828,
+chr22 38752982 38757033 AK126297 0 + 38754099 38754645 0 1 4051, 0,
+chr22 38765977 39043852 BC028626 0 + 38846321 39043745 0 24 115,74,91,68,88,22,342,159,176,75,46,149,126,132,96,184,138,177,147,96,225,71,140,495, 0,71581,80298,110641,200541,205705,216358,224648,227951,231603,232525,234521,240171,254981,255436,255676,263038,265343,267031,267428,269809,270468,275616,277380,
+chr22 38898445 39043860 AB029016 0 + 38898639 39043745 0 21 199,88,22,342,2349,176,75,46,149,126,132,96,184,138,177,147,96,225,71,140,503, 0,68073,73237,83890,86746,95483,99135,100057,102053,107703,122513,122968,123208,130570,132875,134563,134960,137341,138000,143148,144912,
+chr22 39067006 39087250 AF067854 0 + 39067062 39087026 0 12 209,204,45,80,172,47,91,70,148,91,90,311, 0,3329,6570,7745,12361,12757,13899,14770,14985,16478,17773,19933,
+chr22 39067062 39087251 NM_000026 0 + 39067062 39087026 0 13 153,204,45,80,172,47,91,70,148,91,90,177,312, 0,3273,6514,7689,12305,12701,13843,14714,14929,16422,17717,18321,19877,
+chr22 39067063 39087059 S60710 0 + 39067137 39087026 0 13 152,204,45,80,172,47,91,70,148,91,90,177,120, 0,3272,6513,7688,12304,12700,13842,14713,14928,16421,17716,18320,19876,
+chr22 39091094 39130793 NM_015705 0 + 39121310 39130263 0 22 98,118,83,67,209,108,144,196,146,225,55,128,156,55,50,153,71,49,86,123,61,608, 0,30105,31002,31548,33656,33966,34550,35058,35487,35847,36426,36610,36822,37198,37480,37686,38036,38203,38342,38659,38874,39091,
+chr22 39091142 39130576 CR608708 0 + 39121310 39130263 0 20 50,118,83,67,209,108,144,196,146,225,552,55,50,153,71,49,86,123,61,391, 0,30057,30954,31500,33608,33918,34502,35010,35439,35799,36378,37150,37432,37638,37988,38155,38294,38611,38826,39043,
+chr22 39130791 39357190 NM_020831 0 - 39131893 39183731 0 15 1620,61,153,1011,172,254,150,176,162,76,56,66,262,62,209, 0,6698,7053,8086,10117,10559,13248,13918,19318,21117,25211,52933,141818,184386,226190,
+chr22 39200791 39207642 AB051446 0 - 39202949 39203180 0 1 6851, 0,
+chr22 39394007 39397024 AK128367 0 + 39394842 39395364 0 1 3017, 0,
+chr22 39399736 39403318 NM_005297 0 + 39399949 39402432 0 2 502,1866, 0,1716,
+chr22 39399736 39402939 BC001736 0 + 39401496 39402432 0 2 502,1487, 0,1716,
+chr22 39399776 39402587 AY747629 0 + 39399949 39402432 0 3 462,176,581, 0,1676,2230,
+chr22 39464798 39465631 AF338197 0 + 39464852 39465227 0 1 833, 0,
+chr22 39490136 39539892 NM_006358 0 - 39491337 39539752 0 9 1349,83,96,146,117,152,67,61,194, 0,4304,7407,7595,9376,22892,24881,29390,49562,
+chr22 39545102 39577187 NM_003932 0 - 39547041 39577044 0 12 2068,134,49,117,103,111,85,67,71,76,58,253, 0,2497,5027,6241,7970,10961,11204,16027,20240,23695,26224,31832,
+chr22 39545102 39577134 BC052982 0 - 39545149 39545326 0 12 2068,134,49,117,103,111,85,67,71,76,58,200, 0,2497,5027,6241,7970,10961,11204,16027,20240,23695,26224,31832,
+chr22 39577593 39648378 NM_022098 0 + 39577685 39646939 0 10 156,117,408,203,63,114,86,181,121,1606, 0,11909,24680,29223,50497,52032,57149,65243,67272,69179,
+chr22 39577617 39647058 BC004989 0 + 39602329 39646939 0 10 132,117,408,203,63,114,86,181,121,286, 0,11885,24656,29199,50473,52008,57125,65219,67248,69155,
+chr22 39577649 39609191 BC001208 0 + 39577685 39608977 0 5 100,117,408,203,259, 0,11853,24624,29167,31283,
+chr22 39580052 39582630 NM_145174 0 - 39581568 39582498 0 1 2578, 0,
+chr22 39671884 39693168 NM_014248 0 + 39671902 39692992 0 5 96,79,71,86,189, 0,2174,12666,16418,21095,
+chr22 39784531 39785190 CR605850 0 + 39784555 39785140 0 1 659, 0,
+chr22 39813106 39900578 NM_001429 0 + 39813508 39899460 0 31 496,635,177,262,114,246,94,138,118,175,78,110,138,438,180,145,119,240,89,81,57,78,68,151,147,114,166,165,162,282,3302, 0,24584,33261,34884,37287,38785,43210,45050,47537,48445,54136,55234,56435,57158,59230,59603,62392,64566,65809,68039,70120,71450,73996,75846,76118,76900,77803,79896,81020,83644,84170,
+chr22 39925785 39948314 AK097052 0 + 39934407 39947859 0 14 105,238,176,124,80,118,135,89,232,77,105,148,83,722, 0,4414,8569,10857,11841,14137,15452,15917,18738,19443,19685,20512,21380,21807,
+chr22 39925812 39951774 NM_001003689 0 + 39925866 39948101 0 18 78,238,134,124,80,118,135,89,232,77,105,148,83,235,105,66,117,1132, 0,4387,8584,10830,11814,14110,15425,15890,18711,19416,19658,20485,21353,21780,22266,22495,24231,24830,
+chr22 39925812 39951774 NM_031488 0 + 39925866 39950755 0 17 78,238,134,124,80,118,135,89,232,77,105,148,83,235,66,117,1132, 0,4387,8584,10830,11814,14110,15425,15890,18711,19416,19658,20485,21353,21780,22495,24231,24830,
+chr22 39925812 39951155 AL136564 0 + 39925866 39947859 0 16 78,238,134,124,80,118,135,89,232,77,105,148,83,781,117,513, 0,4387,8584,10830,11814,14110,15425,15890,18711,19416,19658,20485,21353,21780,24231,24830,
+chr22 39950023 39961435 BC068590 0 - 39950207 39961385 0 6 211,199,167,1710,178,58, 0,5625,6964,7656,9923,11354,
+chr22 39966115 40006716 NM_002883 0 - 39967106 40001548 0 16 1061,122,89,103,120,187,85,100,114,159,135,180,60,128,150,227, 0,3718,4117,5395,7260,8696,10409,10579,11099,12336,15834,19052,22485,28988,35321,40374,
+chr22 40022066 40080651 NM_017590 0 + 40041164 40077933 0 23 210,59,34,198,159,81,57,43,191,322,59,100,162,206,101,182,86,134,106,109,134,164,2971, 0,19092,24001,24158,25643,28460,30608,36750,37438,38253,39525,40966,41852,44440,46504,47557,49998,53906,54194,54391,54780,55082,55614,
+chr22 40090934 40093733 AK097637 0 - 40093151 40093685 0 1 2799, 0,
+chr22 40102462 40119828 NM_003216 0 + 40102548 40116464 0 4 243,318,221,3580, 0,5392,12137,13786,
+chr22 40102624 40116483 U06935 0 + 40102674 40116464 0 4 81,318,221,235, 0,5230,11975,13624,
+chr22 40153991 40167527 NM_016272 0 - 40156814 40157849 0 2 3920,645, 0,12891,
+chr22 40180221 40189208 NM_032758 0 - 40180901 40189157 0 4 770,167,24,103, 0,7730,8406,8884,
+chr22 40189628 40249492 NM_001098 0 + 40189650 40249117 0 18 58,137,259,93,159,151,105,92,106,158,74,112,123,156,192,133,122,510, 0,30601,38666,42751,46252,46642,48402,49356,51046,53705,54080,54705,55721,56068,57137,58163,58776,59354,
+chr22 40189633 40249450 CR595461 0 + 40189650 40249117 0 18 53,137,259,93,159,226,105,92,106,158,74,112,123,156,192,133,122,468, 0,30596,38661,42746,46247,46637,48397,49351,51041,53700,54075,54700,55716,56063,57132,58158,58771,59349,
+chr22 40249345 40264856 BC088367 0 - 40249786 40264605 0 6 495,202,64,87,97,362, 0,1845,3252,3817,11857,15149,
+chr22 40249345 40264880 BC017248 0 - 40249786 40264605 0 5 495,202,64,97,386, 0,1845,3252,11857,15149,
+chr22 40258655 40264976 AK129663 0 - 40261044 40264605 0 4 113,1638,131,45, 0,1006,5839,6276,
+chr22 40281628 40297170 AL834417 0 + 40292469 40295399 0 4 59,299,123,1934, 0,10718,12530,13608,
+chr22 40297411 40310313 NM_002676 0 - 40297821 40310309 0 8 533,116,76,100,92,77,118,91, 0,900,1898,7051,7373,7619,9168,12811,
+chr22 40321435 40341416 NM_015704 0 - 40321600 40341343 0 6 259,123,110,70,22,161, 0,2327,3112,6330,6908,19820,
+chr22 40341794 40384552 NM_001469 0 + 40342508 40384319 0 13 55,97,113,139,255,184,187,169,162,130,101,114,427, 0,699,6827,14822,15225,16317,25605,29432,32238,35612,36961,40040,42331,
+chr22 40341798 40384544 AK055786 0 + 40342508 40384319 0 13 51,97,113,16,255,184,187,169,162,130,101,114,419, 0,695,6823,14941,15221,16313,25601,29428,32234,35608,36957,40036,42327,
+chr22 40342491 40384389 CR456492 0 + 40342508 40384319 0 6 47,115,130,101,114,264, 0,31588,34915,36264,39343,41634,
+chr22 40352738 40354483 AF130053 0 + 40354206 40354329 0 3 11,3,772, 0,38,973,
+chr22 40394437 40403056 NM_005008 0 - 40395436 40402862 0 3 1262,121,197, 0,6310,8422,
+chr22 40394437 40409413 NM_001003796 0 - 40395436 40409300 0 3 1262,121,116, 0,6310,14860,
+chr22 40411046 40418640 NM_024588 0 + 40417053 40417758 0 2 301,4674, 0,2920,
+chr22 40411046 40418640 BC035403 0 + 40414690 40415590 0 2 301,4674, 0,2920,
+chr22 40468791 40519959 AK128158 0 + 40496750 40519803 0 15 94,4757,148,276,166,124,111,161,82,176,82,107,132,113,202, 0,5489,14886,22398,27814,30401,32996,33397,36051,36320,45541,46083,47123,47447,50966,
+chr22 40472963 40519959 AK092934 0 + 40491192 40519803 0 17 192,98,183,98,90,276,166,105,111,161,82,176,82,107,132,113,202, 0,1489,5905,6889,10772,18226,23642,26248,28824,29225,31879,32148,41369,41911,42951,43275,46794,
+chr22 40472963 40519959 AK092934 0 + 40502238 40519803 0 17 192,98,183,98,90,276,166,105,111,161,82,176,82,107,132,113,202, 0,1489,5905,6889,10772,18226,23642,26248,28824,29225,31879,32148,41369,41911,42951,43275,46794,
+chr22 40478958 40519959 AK094461 0 + 40491192 40519803 0 13 79,276,166,105,111,161,82,176,82,107,42,113,202, 0,12231,17647,20253,22829,23230,25884,26153,35374,35916,36956,37280,40799,
+chr22 40478958 40519959 AK094461 0 + 40502238 40519803 0 13 79,276,166,105,111,161,82,176,82,107,42,113,202, 0,12231,17647,20253,22829,23230,25884,26153,35374,35916,36956,37280,40799,
+chr22 40496550 40519957 AK097834 0 + 40502220 40514820 0 11 221,170,111,161,82,176,82,184,132,113,200, 0,2661,5237,5638,8292,8561,17782,18247,19364,19688,23207,
+chr22 40496552 40519957 AK093341 0 + 40496750 40514449 0 10 219,124,111,161,82,176,649,132,113,200, 0,2640,5235,5636,8290,8559,17780,19362,19686,23205,
+chr22 40501903 40519957 BC032248 0 + 40502238 40519803 0 7 446,82,176,82,107,113,200, 0,2939,3208,12429,12971,14335,17854,
+chr22 40521177 40546803 NM_024821 0 + 40529394 40546327 0 7 93,119,122,85,182,72,602, 0,8201,9205,9533,12590,13077,25024,
+chr22 40551718 40555169 AK096917 0 - 40554126 40554978 0 2 2766,223, 0,3228,
+chr22 40553605 40626873 NM_004599 0 + 40553774 40626164 0 19 257,450,182,147,222,115,182,193,182,277,170,169,118,110,133,169,186,112,930, 0,33729,35509,37787,40696,42235,42441,44127,44840,47614,51740,60015,61718,63950,65547,67228,69868,71761,72338,
+chr22 40553648 40626873 BC056158 0 + 40620873 40626164 0 19 214,450,182,147,222,115,182,193,182,277,170,169,118,110,133,169,186,112,930, 0,33686,35466,37744,40653,42192,42398,44084,44797,47571,51697,59972,61675,63907,65504,67185,69825,71718,72295,
+chr22 40645535 40647282 NM_052945 0 - 40645870 40647277 0 3 523,231,141, 0,1069,1606,
+chr22 40645535 40647282 AX800072 0 - 40645870 40647277 0 3 523,234,141, 0,1069,1606,
+chr22 40659241 40667648 NM_024053 0 - 40659559 40667580 0 6 459,92,80,93,80,125, 0,4872,6487,7175,7679,8282,
+chr22 40659248 40667655 AK123479 0 - 40665639 40667580 0 6 452,79,1128,93,80,132, 0,4865,5432,7168,7672,8275,
+chr22 40672690 40679434 BC068568 0 + 40678720 40679044 0 2 235,1259, 0,5485,
+chr22 40697495 40718570 NM_145733 0 + 40702177 40717471 0 11 83,192,129,82,138,118,96,100,52,94,1165, 0,4653,8992,10214,10630,12575,14581,15672,17298,17629,19910,
+chr22 40697495 40718723 NM_019106 0 + 40702177 40715260 0 10 83,192,129,82,138,118,96,100,52,3599, 0,4653,8992,10214,10630,12575,14581,15672,17298,17629,
+chr22 40697495 40718570 NM_145734 0 + 40702177 40708175 0 9 83,192,138,43,87,100,52,94,1165, 0,4653,10630,12575,14590,15672,17298,17629,19910,
+chr22 40697495 40718722 AL833942 0 + 40697568 40715260 0 10 83,192,129,82,138,118,96,100,52,3598, 0,4653,8992,10214,10630,12575,14581,15672,17298,17629,
+chr22 40719291 40748975 NM_152613 0 + 40719322 40747685 0 6 93,109,142,93,108,1706, 0,20523,20874,21216,23461,27978,
+chr22 40778884 40791273 NM_000262 0 - 40780782 40790801 0 9 2033,144,198,162,95,178,172,136,488, 0,2543,4446,7357,8329,8732,9384,10058,11901,
+chr22 40794754 40799941 NM_001002034 0 + 40797797 40798577 0 3 91,82,2158, 0,1320,3029,
+chr22 40800198 40804787 NM_033318 0 + 40800272 40802566 0 3 260,141,1165, 0,2230,3424,
+chr22 40806030 40811388 NM_002490 0 - 40806686 40811326 0 3 788,116,279, 0,1533,5079,
+chr22 40806030 40811249 BC002772 0 - 40806686 40811248 0 3 788,116,140, 0,1533,5079,
+chr22 40847000 40851379 NM_000106 0 - 40847073 40851291 0 9 252,142,188,142,177,161,153,172,268, 0,350,946,1341,1673,2283,2532,3237,4111,
+chr22 40847055 40851316 CR456430 0 - 40847073 40851291 0 8 197,142,188,142,177,161,172,205, 0,295,891,1286,1618,2228,3182,4056,
+chr22 40880516 40935943 NM_181492 0 - 40881844 40935809 0 4 1346,50,94,5789, 0,9834,19596,49638,
+chr22 40880516 40935943 NM_005650 0 - 40889156 40935809 0 5 1346,128,50,94,5789, 0,8596,9834,19596,49638,
+chr22 41103470 41152894 NM_145912 0 - 41105664 41152861 0 6 2254,90,99,113,330,154, 0,4022,14891,26468,28440,49270,
+chr22 41103470 41105468 AK097971 0 - 41103973 41105008 0 1 1998, 0,
+chr22 41103470 41152894 BC038241 0 - 41105664 41132205 0 6 2254,90,99,113,330,154, 0,4022,14891,26468,28440,49270,
+chr22 41221082 41233063 AK094872 0 + 41221174 41223009 0 10 114,150,114,418,75,110,83,94,112,442, 0,1046,1340,1772,2620,4454,8449,10052,11237,11539,
+chr22 41221093 41233064 NM_170694 0 + 41221174 41229610 0 11 103,150,114,42,20,75,110,83,94,112,443, 0,1035,1329,1761,2159,2609,4443,8438,10041,11226,11528,
+chr22 41233072 41240306 NM_015703 0 - 41233413 41240290 0 7 427,199,98,118,126,143,89, 0,1537,2113,2582,3442,5436,7145,
+chr22 41274365 41294885 BC041802 0 + 41274524 41291641 0 11 181,150,114,42,20,75,110,80,781,94,446, 0,1076,1370,1802,2202,2652,4486,6324,17259,18574,20074,
+chr22 41274422 41294886 NM_014509 0 + 41274524 41294559 0 12 124,150,114,42,20,75,110,80,35,83,94,447, 0,1019,1313,1745,2145,2595,4429,6267,12385,17202,18517,20017,
+chr22 41274524 41294559 AL589866 0 + 41274524 41294559 0 7 22,14,37,35,83,94,120, 0,917,6208,12283,17100,18415,19915,
+chr22 41274524 41294559 AL590118 0 + 41274524 41294559 0 10 22,114,20,75,110,80,35,83,94,120, 0,1211,2043,2493,4327,6165,12283,17100,18415,19915,
+chr22 41293765 41302515 BC007736 0 - 41295236 41297045 0 7 1557,196,98,118,119,143,83, 0,2669,3250,3719,4582,6955,8667,
+chr22 41304224 41335460 NM_032311 0 - 41306294 41335361 0 9 2248,67,130,78,180,96,87,391,158, 0,3785,8234,11816,12465,15977,18249,19049,31078,
+chr22 41304224 41335460 NM_178136 0 - 41306294 41335361 0 8 2248,67,130,78,180,96,391,158, 0,3785,8234,11816,12465,15977,19049,31078,
+chr22 41304225 41335415 BC019643 0 - 41305487 41335361 0 5 1294,112,96,391,113, 0,12532,15976,19048,31077,
+chr22 41305487 41335361 AY506562 0 - 41305712 41335361 0 3 333,391,59, 0,17786,29815,
+chr22 41339318 41367516 NM_007326 0 - 41340276 41357302 0 9 1131,100,86,84,130,107,73,132,127, 0,4974,8489,8790,9337,12067,12563,17900,28071,
+chr22 41339318 41369877 NM_000398 0 - 41340276 41369819 0 9 1131,100,86,84,130,107,73,132,79, 0,4974,8489,8790,9337,12067,12563,17900,30480,
+chr22 41339378 41353852 AK124528 0 - 41340276 41351586 0 6 1071,100,86,84,130,2467, 0,4914,8429,8730,9277,12007,
+chr22 41360396 41360815 BC093721 0 - 41360475 41360778 0 1 419, 0,
+chr22 41412625 41441374 NM_017436 0 - 41413393 41414455 0 3 1876,141,74, 0,3369,28675,
+chr22 41517029 41577798 NM_014570 0 - 41518091 41577686 0 16 1080,122,91,124,127,128,129,140,47,60,88,84,132,73,119,181, 0,2513,10547,12241,14287,20611,21203,25744,27130,30414,35023,37716,38836,44418,50988,60588,
+chr22 41517033 41577743 AF111847 0 - 41518091 41577686 0 16 1076,122,91,124,132,123,129,140,47,60,88,84,132,73,119,126, 0,2509,10543,12237,14283,20612,21199,25740,27126,30410,35019,37712,38832,44414,50984,60584,
+chr22 41517033 41520462 AK127525 0 - 41519598 41520051 0 1 3429, 0,
+chr22 41590274 41735649 NM_007229 0 - 41591860 41632584 0 11 1699,197,123,122,121,176,156,236,157,137,125, 0,6366,7117,9277,12413,14615,18872,21176,23686,42250,145250,
+chr22 41590278 41680385 AL136845 0 - 41591860 41632584 0 10 1695,197,122,121,176,156,236,157,137,83, 0,6362,9273,12409,14611,18868,21172,23682,42246,90024,
+chr22 41760142 41809927 NM_001008572 0 - 41760279 41790347 0 12 267,164,87,144,109,135,181,209,72,117,85,147, 0,6771,12162,19745,24174,24551,28771,29997,30532,35835,40263,49638,
+chr22 41760142 41809927 NM_012263 0 - 41760279 41796090 0 11 267,164,87,144,109,135,181,209,117,85,147, 0,6771,12162,19745,24174,24551,28771,29997,35835,40263,49638,
+chr22 41760172 41809923 CR625979 0 - 41790679 41796090 0 12 237,164,87,144,109,135,181,209,72,117,85,143, 0,6741,12132,19715,24144,24521,28741,29967,30502,35805,40233,49608,
+chr22 41760279 41796090 AL589867 0 - 41760279 41796090 0 8 130,164,144,109,135,181,209,113, 0,6634,19608,24037,24414,28634,29860,35698,
+chr22 41831254 41850215 NM_001197 0 + 41844526 41849809 0 5 53,168,99,130,499, 0,13265,16946,17745,18462,
+chr22 41853385 41863894 NM_173467 0 - 41853546 41863852 0 4 605,218,88,465, 0,4199,8280,10044,
+chr22 41853385 41863894 NM_014507 0 - 41853958 41863852 0 3 605,88,465, 0,8280,10044,
+chr22 41872050 41883746 NM_000714 0 + 41879742 41883495 0 4 58,211,139,440, 0,7663,9505,11256,
+chr22 41872050 41883745 NM_007311 0 + 41881654 41883575 0 3 58,139,439, 0,9505,11256,
+chr22 41887126 41907605 NM_015140 0 - 41888511 41907573 0 14 1537,139,69,82,152,112,195,117,77,134,160,199,170,209, 0,2151,2877,5196,5780,7092,7586,7876,9697,12996,13218,14119,16357,20270,
+chr22 41917786 41919769 AK055463 0 - 41919161 41919620 0 1 1983, 0,
+chr22 41923727 42063853 AK127719 0 - 41924500 41978827 0 19 926,80,153,198,162,168,162,204,138,41,53,123,117,117,126,135,129,132,176, 0,4310,4848,6819,7698,9201,10866,15031,17226,17949,25912,28529,35614,54995,59496,87822,116713,135880,139950,
+chr22 41924495 42063785 NM_173050 0 - 41924500 42063765 0 22 158,80,153,198,162,168,162,204,138,117,105,120,123,117,123,117,117,126,135,129,132,108, 0,3542,4080,6051,6930,8433,10098,14263,16458,17181,18646,19105,23382,25080,27761,34846,54227,58728,87054,115945,135112,139182,
+chr22 41958079 42063823 BC047916 0 - 41959231 42063765 0 8 1379,90,117,126,135,129,132,146, 0,17912,20643,25144,53470,82361,101528,105598,
+chr22 42249524 42290924 AL355841 0 - 42249633 42290870 0 7 232,150,185,169,231,228,57, 0,2071,5944,8633,11383,26125,41343,
+chr22 42249554 42533019 NM_198856 0 - 42249633 42476597 0 30 202,150,185,169,231,228,192,196,156,195,119,97,233,134,115,169,174,161,60,168,109,111,149,125,113,137,67,89,137,71, 0,2041,5914,8603,11353,26095,47523,51690,61300,71295,79708,87052,97673,103331,106328,138330,140098,143199,143472,149222,154973,158697,182701,188074,202925,207083,226992,236531,280221,283394,
+chr22 42249554 42533019 NM_022785 0 - 42249633 42503099 0 32 202,150,185,169,231,228,192,196,156,195,119,97,233,134,115,169,174,161,60,168,109,111,149,125,113,137,67,89,212,146,137,71, 0,2041,5914,8603,11353,26095,47523,51690,61300,71295,79708,87052,97673,103331,106328,138330,140098,143199,143472,149222,154973,158697,182701,188074,202925,207083,226992,236531,244118,253406,280221,283394,
+chr22 42249559 42336676 AK027241 0 - 42249633 42320932 0 12 197,150,185,169,231,228,192,196,156,195,119,70, 0,2036,5909,8598,11348,26090,47518,51685,61295,71290,79703,87047,
+chr22 42545289 42583257 NM_014351 0 - 42546781 42583163 0 7 1605,139,95,127,81,131,263, 0,4551,9131,14358,15436,17293,37705,
+chr22 42545289 42583257 NM_176874 0 - 42548380 42583163 0 8 1605,127,139,95,127,81,131,263, 0,3005,4551,9131,14358,15436,17293,37705,
+chr22 42600459 42612758 NM_138814 0 - 42601575 42612661 0 9 1207,117,133,186,57,214,66,233,290, 0,1879,4534,6624,7912,9646,10120,11383,12009,
+chr22 42600656 42612794 AK127172 0 - 42601575 42612661 0 7 1010,117,133,186,57,171,326, 0,1682,4337,6427,7715,9449,11812,
+chr22 42644519 42668349 NM_025225 0 + 42644692 42667163 0 9 360,233,66,210,61,222,133,105,1415, 0,3196,5085,9139,10867,13312,16254,20952,22415,
+chr22 42676201 42717312 NM_015380 0 + 42676358 42717164 0 15 178,111,102,88,107,131,88,129,72,87,71,68,147,142,194, 0,7865,9031,13310,16815,17450,17815,20634,21329,22451,25970,28512,33690,34844,40917,
+chr22 42713079 42717310 AK124895 0 + 42715181 42715595 0 1 4231, 0,
+chr22 42720073 42890002 NM_001003828 0 + 42720121 42889459 0 14 119,140,90,71,103,141,116,59,20,62,69,102,73,620, 0,241,94635,100760,119745,132194,133601,137167,140831,148568,152190,158689,164565,169309,
+chr22 42745068 42890002 NM_013327 0 + 42745120 42889459 0 13 164,90,71,103,141,116,59,20,62,69,102,73,620, 0,69640,75765,94750,107199,108606,112172,115836,123573,127195,133694,139570,144314,
+chr22 42745090 42890002 BC046103 0 + 42745162 42889459 0 13 142,90,71,103,141,116,59,20,62,69,102,73,620, 0,69618,75743,94728,107177,108584,112150,115814,123551,127173,133672,139548,144292,
+chr22 42901757 42927435 NM_022141 0 + 42904110 42927207 0 14 209,176,91,65,103,141,116,56,23,59,69,102,73,338, 0,765,2341,4831,6799,8137,9574,11072,12824,15178,15370,17644,24780,25340,
+chr22 42902180 42927416 CR619524 0 + 42904110 42912889 0 13 32,176,91,65,103,141,116,81,57,69,102,73,319, 0,342,1918,4408,6376,7714,9151,10649,14757,14947,17221,24357,24917,
+chr22 43208986 43214542 NM_032287 0 - 43213253 43213973 0 2 5242,82, 0,5474,
+chr22 43209008 43214542 BC030232 0 - 43211139 43211481 0 2 5220,82, 0,5452,
+chr22 43209008 43214542 BC030232 0 - 43213253 43213694 0 2 5220,82, 0,5452,
+chr22 43285755 43288866 NM_001012986 0 + 43285822 43288555 0 4 103,89,117,411, 0,1161,2037,2700,
+chr22 43393473 43454098 NM_015366 0 + 43418918 43453664 0 9 184,117,81,49,58,92,141,136,910, 0,25435,37534,48187,49520,54673,55194,57970,59715,
+chr22 43393501 43454098 AK055848 0 + 43443014 43453664 0 10 156,539,117,81,49,58,92,141,136,910, 0,2262,25407,37506,48159,49492,54645,55166,57942,59687,
+chr22 43418649 43579088 CR597658 0 + 43502944 43579012 0 15 376,81,49,58,150,88,132,87,99,111,74,78,129,104,397, 0,12358,23011,24344,84224,99844,106074,112439,120138,123250,143036,145740,146699,157498,160042,
+chr22 43418670 43454098 NM_181333 0 + 43418891 43453664 0 8 355,81,49,58,92,141,136,910, 0,12337,22990,24323,29476,29997,32773,34518,
+chr22 43418891 43579123 AL355192 0 + 43418891 43579012 0 17 134,81,49,58,92,141,136,150,88,87,99,111,74,78,129,104,432, 0,12116,22769,24102,29255,29776,32552,83982,99602,112197,119896,123008,142794,145498,146457,157256,159800,
+chr22 43431005 43579199 NM_181334 0 + 43443014 43579012 0 14 83,49,58,150,88,132,87,99,111,74,78,129,104,508, 0,10655,11988,71868,87488,93718,100083,107782,110894,130680,133384,134343,145142,147686,
+chr22 43441662 43526218 AF195969 0 + 43443014 43525717 0 6 47,58,150,88,132,796, 0,1331,61211,76831,83061,83760,
+chr22 43447300 43454098 NM_017701 0 + 43448127 43453664 0 4 938,141,136,910, 0,1367,4143,5888,
+chr22 43460368 43462884 AK124840 0 + 43460859 43461555 0 1 2516, 0,
+chr22 43468974 43579129 AK001306 0 + 43502944 43579012 0 13 70,150,88,132,93,87,99,111,74,78,129,104,438, 0,33899,49519,55749,56448,62114,69813,72925,92711,95415,96374,107173,109717,
+chr22 43468990 43567378 BC059382 0 + 43502944 43565485 0 10 54,150,88,132,87,99,111,74,78,2030, 0,33883,49503,55733,62098,69797,72909,92695,95399,96358,
+chr22 43502944 43579012 AF544240 0 + 43502944 43579012 0 11 79,88,136,83,99,111,74,78,129,104,321, 0,15549,21779,28148,35843,38955,58741,61445,62404,73203,75747,
+chr22 43597578 43726118 NM_138415 0 - 43599502 43725967 0 13 2143,104,76,159,23,55,77,52,267,351,93,66,205, 0,4264,4701,6801,8598,10144,12295,14870,32660,35118,39236,127384,128335,
+chr22 43599358 43726000 CR456448 0 - 43599502 43725967 0 13 363,104,76,159,23,55,77,52,141,351,93,66,87, 0,2484,2921,5021,6818,8364,10515,13090,30880,33338,37456,125604,126555,
+chr22 43880262 43901242 NM_007172 0 + 43884595 43901073 0 8 452,79,84,187,663,82,119,372, 0,4323,7755,12049,14393,17441,19557,20608,
+chr22 43880262 43901242 NM_153684 0 + 43888032 43901073 0 9 452,79,156,84,187,663,82,119,372, 0,4323,7143,7755,12049,14393,17441,19557,20608,
+chr22 43908659 43928884 NM_015264 0 - 43913593 43928761 0 10 4975,159,163,195,141,102,78,120,152,202, 0,5548,7631,10748,11603,12975,13388,13551,19714,20023,
+chr22 43908659 43957187 NM_001009880 0 - 43913593 43957121 0 10 4975,159,163,195,141,102,78,120,152,130, 0,5548,7631,10748,11603,12975,13388,13551,19714,48398,
+chr22 43912246 43943321 BC053595 0 - 43913593 43928487 0 10 1388,159,163,195,141,102,78,120,152,124, 0,1961,4044,7161,8016,9388,9801,9964,16127,30951,
+chr22 44001425 44012291 NM_006953 0 + 44001431 44012137 0 6 58,156,280,83,133,314, 0,933,2164,4053,8173,10552,
+chr22 44026351 44057180 NM_017911 0 + 44038797 44056823 0 9 250,56,253,222,129,286,33,84,377, 0,12437,13241,17908,20669,22491,25416,26394,30452,
+chr22 44060552 44088006 AK125736 0 - 44060973 44087953 0 12 523,111,70,152,155,157,99,154,146,142,107,119, 0,1324,5593,8315,9842,10823,14561,15669,17703,18749,25818,27335,
+chr22 44130116 44148839 NM_015653 0 + 44134026 44148779 0 7 317,81,345,119,228,167,139, 0,623,3902,8590,12248,17200,18584,
+chr22 44219255 44275128 NM_006487 0 + 44219402 44274491 0 15 226,106,136,163,60,102,138,138,144,129,126,120,132,124,641, 0,15843,22704,25008,28426,30224,30922,32361,38390,39316,40562,44246,45774,47653,55232,
+chr22 44219255 44279778 NM_001996 0 + 44219402 44279683 0 15 226,106,136,163,60,102,138,138,144,129,126,120,132,124,450, 0,15843,22704,25008,28426,30224,30922,32361,38390,39316,40562,44246,45774,47653,60073,
+chr22 44219255 44282118 NM_006485 0 + 44219402 44281409 0 15 226,106,136,163,60,102,138,138,144,129,126,120,132,124,818, 0,15843,22704,25008,28426,30224,30922,32361,38390,39316,40562,44246,45774,47653,62045,
+chr22 44219255 44317551 NM_006486 0 + 44219402 44316863 0 17 226,106,136,163,60,102,138,138,144,129,126,120,132,124,143,132,828, 0,15843,22704,25008,28426,30224,30922,32361,38390,39316,40562,44246,45774,47653,71672,74138,97468,
+chr22 44219296 44317551 AK075566 0 + 44235107 44316863 0 17 185,106,97,95,60,102,138,138,144,129,126,120,132,124,143,132,828, 0,15802,22663,25035,28385,30183,30881,32320,38349,39275,40521,44205,45733,47612,71631,74097,97427,
+chr22 44219299 44279772 AK075460 0 + 44219402 44279683 0 16 182,106,114,136,163,60,102,138,138,144,129,126,121,131,124,444, 0,15799,20208,22660,24964,28382,30180,30878,32317,38346,39272,40518,44202,45731,47609,60029,
+chr22 44388223 44561366 NM_013236 0 + 44388480 44560088 0 12 373,192,83,97,159,81,166,109,170,64,188,1281, 0,17905,21189,28475,30882,46606,57618,66924,68562,135152,171184,171862,
+chr22 44723014 44727176 AK128491 0 + 44723210 44723795 0 1 4162, 0,
+chr22 44766857 44770543 NM_018280 0 - 44768225 44770492 0 3 1011,378,395, 0,1063,3291,
+chr22 44770267 44822418 BC036832 0 + 44814325 44822260 0 5 52,85,65,58,611, 0,44057,44625,49323,51540,
+chr22 44785119 44787417 AK123383 0 - 44787033 44787417 0 1 2298, 0,
+chr22 44802401 44828037 NM_207477 0 + 44814325 44826409 0 5 158,85,65,87,1875, 0,11923,12491,23264,23761,
+chr22 44830261 44835416 AK127117 0 + 44834699 44835137 0 1 5155, 0,
+chr22 44887749 44960172 NM_001001930 0 + 44914799 44951796 0 10 161,156,84,100,247,161,139,203,448,8624, 0,4655,5419,17389,27011,43839,46929,48478,60458,63799,
+chr22 44893181 44938876 NM_032644 0 + 44914799 44936496 0 6 71,100,247,161,139,2649, 0,11957,21579,38407,41497,43046,
+chr22 44956377 44958329 BC071932 0 + 44956437 44956662 0 1 1952, 0,
+chr22 44958399 44962140 AK127072 0 - 44961655 44962126 0 1 3741, 0,
+chr22 44960429 44966712 NM_207327 0 - 44961507 44964700 0 4 1225,112,113,41, 0,3096,4158,6242,
+chr22 44960439 44966712 BC067871 0 - 44961229 44961652 0 4 1215,112,113,41, 0,3086,4148,6232,
+chr22 44972078 44979738 NM_006071 0 - 44972976 44979738 0 1 7660, 0,
+chr22 44984438 45010413 BC018918 0 + 44984455 45009300 0 14 50,78,82,172,174,76,120,60,39,82,166,160,74,1207, 0,491,4312,5875,7225,10563,13576,15950,17218,19050,20400,21379,21803,24768,
+chr22 45011586 45013142 CR602756 0 - 45012110 45012416 0 1 1556, 0,
+chr22 45013330 45050112 NM_016426 0 + 45013873 45046546 0 13 17,100,58,625,165,124,381,73,219,202,210,1686,615, 0,465,11235,11404,15226,16975,19117,26275,29521,31773,32443,33132,36167,
+chr22 45051840 45073755 NM_018006 0 + 45052180 45073422 0 11 422,166,107,123,173,54,67,101,145,83,498, 0,2354,7837,10997,14866,16696,16839,18342,20019,20565,21417,
+chr22 45051840 45073755 NM_001008568 0 + 45052180 45066784 0 11 422,166,107,123,118,54,67,101,145,83,498, 0,2354,7837,10997,14921,16696,16839,18342,20019,20565,21417,
+chr22 45052154 45073753 BC080631 0 + 45062885 45073370 0 9 108,166,123,114,54,67,101,145,496, 0,2040,10683,14611,16382,16525,18028,19705,21103,
+chr22 45052160 45073600 CR456445 0 + 45052180 45073370 0 10 102,166,107,123,173,54,67,101,145,343, 0,2034,7517,10677,14546,16376,16519,18022,19699,21097,
+chr22 45077249 45253586 NM_014246 0 - 45079593 45253586 0 35 2354,256,225,150,104,95,126,127,80,113,175,201,127,168,205,144,184,210,95,102,184,121,142,175,114,186,167,126,164,158,89,116,223,639,3544, 0,3162,3678,4397,4752,5552,6159,6895,8345,8858,12049,16227,17757,19954,21012,23709,25568,28456,29558,30352,30799,33308,35771,36840,37690,38883,48162,48921,49564,50768,72559,75340,78355,102873,172793,
+chr22 45343176 45393801 CR456470 0 + 45343215 45393667 0 18 201,121,121,62,133,26,92,92,49,72,44,110,155,145,94,85,69,239, 0,11079,31426,34620,36279,37077,37265,38854,40064,41335,41928,42038,46082,46909,47896,48707,49839,50386,
+chr22 45391023 45396092 BC080189 0 + 45391119 45393667 0 4 143,85,69,2530, 0,860,1992,2539,
+chr22 45400826 45406632 NM_182661 0 - 45402410 45403016 0 2 2796,225, 0,5581,
+chr22 45400826 45454671 NM_022766 0 - 45403549 45454564 0 13 2796,209,206,77,106,153,75,146,64,126,123,114,249, 0,5581,7161,9016,10799,14902,17225,23432,26675,27757,35675,36491,53596,
+chr22 45400838 45454674 AB079066 0 - 45403549 45424379 0 13 2784,209,206,77,106,153,75,146,64,126,123,114,252, 0,5569,7149,9004,10787,14890,17213,23420,26663,27745,35663,36479,53584,
+chr22 45479067 45890241 NM_014346 0 + 45479202 45889788 0 13 197,57,341,177,71,129,63,115,110,76,128,96,582, 0,29868,30849,34792,116000,128613,132131,149421,211637,234981,274418,348855,410592,
+chr22 45479087 45890190 CR590373 0 + 45479202 45889788 0 12 177,57,341,71,129,63,115,110,76,128,96,531, 0,29848,30829,115980,128593,132111,149401,211617,234961,274398,348835,410572,
+chr22 45479096 45890241 BC002743 0 + 45479202 45889788 0 11 168,341,71,129,63,115,110,76,128,96,582, 0,30820,115971,128584,132102,149392,211608,234952,274389,348826,410563,
+chr22 45480157 45890254 AK125705 0 + 45509938 45629849 0 14 545,130,57,341,177,71,129,63,115,113,76,128,96,595, 0,4306,28778,29759,33702,114910,127523,131041,148331,149591,233891,273328,347765,409502,
+chr22 45630485 45632435 AK057318 0 - 45631759 45632293 0 1 1950, 0,
+chr22 45832252 45833630 AY358194 0 - 45832535 45833009 0 1 1378, 0,
+chr22 46337310 46347837 NM_001001693 0 - 46341701 46345699 0 6 59,497,1166,81,140,2242, 0,1413,3425,6119,6395,8285,
+chr22 46857319 46859613 NM_001010902 0 + 46857698 46858967 0 4 826,39,120,104, 0,1022,1591,2190,
+chr22 47609662 47613955 AK124622 0 + 47611461 47611896 0 3 187,2894,485, 0,260,3808,
+chr22 48263189 48270982 NM_207478 0 + 48268301 48268679 0 2 72,3822, 0,3971,
+chr22 48334150 48339429 NM_198851 0 - 48337665 48338991 0 5 628,205,1416,504,63, 0,814,2553,4536,5216,
+chr22 48334155 48372051 BC048207 0 - 48334986 48371968 0 4 1014,235,79,138, 0,4800,5211,37758,
+chr22 48334979 48371939 AK124962 0 - 48335155 48341403 0 6 190,76,235,79,205,807, 0,3707,3976,4387,6372,36153,
+chr22 48487792 48542195 BC030007 0 - 48488741 48538826 0 14 1133,155,110,128,136,498,261,313,129,132,157,1383,6,39, 0,2307,2766,3750,4394,14106,20750,24521,25274,25704,30920,49667,52405,54364,
+chr22 48487798 48539313 NM_014577 0 - 48488741 48538826 0 12 1127,155,110,128,136,105,261,313,129,132,157,1854, 0,2301,2760,3744,4388,14100,20744,24515,25268,25698,30914,49661,
+chr22 48568389 48602951 NM_014838 0 + 48598171 48601687 0 2 109,5109, 0,29453,
+chr22 48617716 48632967 NM_024105 0 - 48618346 48628274 0 10 859,76,170,224,104,195,174,133,240,196, 0,971,1129,4513,6036,6686,7226,10177,10396,15055,
+chr22 48633204 48642035 NM_024324 0 + 48633278 48641816 0 10 203,83,111,92,177,96,84,96,141,272, 0,534,1034,1460,2889,3916,4538,5664,6721,8559,
+chr22 48633241 48642042 BC002894 0 + 48633278 48641816 0 9 166,83,111,92,177,96,84,141,279, 0,497,997,1423,2852,3879,4501,6684,8522,
+chr22 48735398 48753512 NM_001001694 0 - 48737923 48742076 0 15 2348,81,97,58,45,173,55,72,140,115,110,150,28,81,82, 0,2481,2807,3172,3512,3624,4778,4918,5315,5965,6241,6569,14124,14470,18032,
+chr22 48800276 48826195 NM_139202 0 - 48802468 48825788 0 12 2267,165,123,57,117,72,102,102,54,90,236,171, 0,4643,9042,11136,14825,17450,18010,20527,20953,23693,25335,25748,
+chr22 48800285 48826195 BC028425 0 - 48800767 48800965 0 12 2258,165,123,57,117,72,102,102,54,90,236,171, 0,4634,9033,11127,14816,17441,18001,20518,20944,23684,25326,25739,
+chr22 48830950 48902572 NM_018995 0 + 48830974 48902335 0 27 121,185,160,113,188,141,242,133,195,115,178,71,92,59,101,109,179,147,122,100,165,174,150,108,138,92,319, 0,1936,9378,18071,18592,23583,24316,25049,27092,30437,35327,36137,38351,43942,44465,52016,52978,54032,55624,59550,60670,62980,67992,69613,70623,70899,71303,
+chr22 48890274 48900143 AK090740 0 + 48890579 48899125 0 3 326,174,1201, 0,3656,8668,
+chr22 48911646 48921176 NM_052839 0 + 48911646 48920146 0 4 196,1464,202,1070, 0,6178,8173,8460,
+chr22 48911646 48920484 AF398510 0 + 48918000 48920146 0 4 196,1464,202,378, 0,6178,8173,8460,
+chr22 48917948 48920213 CR456467 0 + 48918000 48920163 0 2 1340,394, 0,1871,
+chr22 48926803 48940476 BC093029 0 + 48933946 48938916 0 9 84,67,79,167,141,111,140,364,1246, 0,7109,7658,8422,8982,11323,11531,11905,12427,
+chr22 48926815 48939596 BC012445 0 + 48933946 48939405 0 10 47,67,50,58,141,111,140,173,112,366, 0,7097,7646,8519,8970,11311,11519,11893,12145,12415,
+chr22 48926816 48940484 NM_025204 0 + 48933946 48939405 0 10 71,67,79,167,141,111,140,173,112,1254, 0,7096,7645,8409,8969,11310,11518,11892,12144,12414,
+chr22 48937778 48939596 AF218001 0 + 48938272 48938758 0 2 1294,366, 0,1452,
+chr22 48941864 48958501 NM_031454 0 + 48941922 48958255 0 9 612,204,181,131,281,151,186,157,411, 0,5338,7557,9202,9652,14738,15712,15993,16226,
+chr22 48941864 48958501 AY324823 0 + 48942393 48958246 0 9 612,204,181,131,281,151,186,157,411, 0,5338,7557,9202,9652,14738,15712,15993,16226,
+chr22 48941864 48958501 AY324823 0 + 48958320 48958485 0 9 612,204,181,131,281,151,186,157,411, 0,5338,7557,9202,9652,14738,15712,15993,16226,
+chr22 48958574 48985857 NM_020461 0 - 48958621 48985345 0 25 139,200,214,133,195,142,169,148,59,1624,75,139,116,89,82,150,140,92,110,79,122,174,211,164,1253, 0,229,500,799,1014,1379,1599,1955,2268,2562,4339,4765,6452,6643,6822,8105,8361,8598,9044,9310,10218,11715,15627,22515,26030,
+chr22 48986071 48992271 NM_032019 0 - 48986392 48991918 0 20 345,153,183,79,57,92,85,256,68,107,90,60,66,127,69,105,98,97,135,412, 0,489,724,1112,1493,1689,2506,2704,3039,3180,3476,3645,3917,4142,4449,4674,4877,5241,5585,5788,
+chr22 48986392 48991918 AF407273 0 - 48986392 48991918 0 19 24,153,183,79,57,92,85,256,68,107,90,66,127,69,105,98,97,135,59, 0,168,403,791,1172,1368,2185,2383,2718,2859,3155,3596,3821,4128,4353,4556,4920,5264,5467,
+chr22 48986392 48991918 AY450395 0 - 48987848 48991918 0 16 24,418,79,57,92,256,68,107,66,127,69,105,98,97,135,59, 0,168,791,1172,1368,2383,2718,2859,3596,3821,4128,4353,4556,4920,5264,5467,
+chr22 48988023 48989341 AL512711 0 - 48988597 48989014 0 2 1008,231, 0,1087,
+chr22 48993787 49002546 NM_002969 0 - 48994286 49002395 0 12 579,174,79,80,72,115,48,30,112,59,130,276, 0,2295,2551,2713,2908,3183,3697,4033,4180,5341,8265,8483,
+chr22 48994241 49002430 CR456515 0 - 48994286 49002395 0 11 125,174,79,80,72,115,48,112,59,130,160, 0,1841,2097,2259,2454,2729,3243,3726,4887,7811,8029,
+chr22 49004599 49011236 NM_002751 0 - 49005833 49011178 0 12 1314,174,79,80,72,115,48,30,112,59,130,174, 0,1607,1868,2512,2826,3220,3413,3543,3657,3855,4106,6463,
+chr22 49015866 49031480 AB002313 0 - 49016589 49031470 0 35 828,75,76,65,148,161,155,85,101,157,147,67,182,230,101,140,177,228,130,171,137,109,149,158,82,93,102,109,115,154,127,101,129,183,1078, 0,908,1648,1861,2610,2872,3136,3454,3615,3874,4649,5024,5508,5763,6108,6379,6585,6873,7203,7730,8069,8356,8621,8852,9151,9592,10819,11009,11192,12130,12686,12956,13762,13979,14536,
+chr22 49071903 49173658 NM_014678 0 + 49122481 49172820 0 23 220,131,243,187,138,66,113,114,127,153,210,65,116,86,98,58,125,164,157,89,205,252,887, 0,28689,50562,63358,71221,72761,75536,76018,78923,80131,87842,88934,91635,93036,94175,94512,94843,95268,96370,96630,97491,100535,100868,
+chr22 49071913 49172965 BC052995 0 + 49122481 49172820 0 23 210,131,184,165,138,66,113,114,127,153,210,65,116,86,98,58,125,164,157,89,205,252,194, 0,28679,50552,63370,71211,72751,75526,76008,78913,80121,87832,88924,91625,93026,94165,94502,94833,95258,96360,96620,97481,100525,100858,
+chr22 49071917 49173658 AB014585 0 + 49122481 49172806 0 23 206,131,243,187,138,66,113,114,127,153,210,65,116,86,98,58,125,164,160,89,205,252,883, 0,28675,50548,63344,71207,72747,75522,76004,78909,80117,87828,88920,91621,93022,94161,94498,94829,95254,96353,96616,97477,100521,100858,
+chr22 49071922 49172951 BC041698 0 + 49122481 49172820 0 23 201,131,243,187,138,66,113,117,127,153,210,65,116,86,98,58,125,164,157,89,205,252,180, 0,28670,50543,63339,71202,72742,75517,75996,78904,80112,87823,88915,91616,93017,94156,94493,94824,95249,96351,96611,97472,100516,100849,
+chr22 49100644 49172963 BC000976 0 + 49122481 49172820 0 25 79,126,149,243,187,138,66,113,114,127,153,210,65,116,86,81,98,58,125,164,157,89,226,252,192, 0,16914,19795,21821,34617,42480,44020,46795,47277,50182,51390,59101,60193,62894,64295,64916,65434,65771,66102,66527,67629,67889,68729,71794,72127,
+chr22 49175379 49203598 NM_002972 0 - 49175714 49203413 0 40 434,132,88,212,108,231,131,127,186,102,180,182,138,197,208,137,179,128,196,74,173,269,159,69,150,113,205,99,129,114,78,114,109,133,106,111,159,138,86,240, 0,515,715,1426,1736,7705,8007,8209,8417,8674,9409,9685,12448,12663,13145,13465,13727,14352,14716,14989,15140,15398,15752,16063,16476,17522,17727,18012,18194,18408,18956,19154,19343,19543,19798,20531,20725,20979,21569,27979,
+chr22 49175379 49203583 BC087612 0 - 49175714 49194536 0 41 434,132,88,212,108,231,131,127,186,102,180,182,78,138,197,208,137,179,128,196,74,173,269,159,69,150,113,205,99,129,114,78,114,109,133,106,111,159,138,86,225, 0,515,715,1426,1736,7705,8007,8209,8417,8674,9409,9685,10227,12448,12663,13145,13465,13727,14352,14716,14989,15140,15398,15752,16063,16476,17522,17727,18012,18194,18408,18956,19154,19343,19543,19798,20531,20725,20979,21569,27979,
+chr22 49175379 49203583 BC087612 0 - 49175714 49203413 0 41 434,132,88,212,108,231,131,127,186,102,180,182,78,138,197,208,137,179,128,196,74,173,269,159,69,150,113,205,99,129,114,78,114,109,133,106,111,159,138,86,225, 0,515,715,1426,1736,7705,8007,8209,8417,8674,9409,9685,10227,12448,12663,13145,13465,13727,14352,14716,14989,15140,15398,15752,16063,16476,17522,17727,18012,18194,18408,18956,19154,19343,19543,19798,20531,20725,20979,21569,27979,
+chr22 49210128 49212431 AK024788 0 + 49211279 49211978 0 3 402,153,1121, 0,1011,1182,
+chr22 49210351 49215008 NM_024866 0 + 49210420 49211476 0 2 179,3869, 0,788,
+chr22 49210351 49213580 AK090635 0 + 49211279 49211978 0 2 179,2441, 0,788,
+chr22 49215356 49218894 NM_017584 0 + 49215470 49218429 0 10 129,81,81,163,68,110,68,50,113,574, 0,601,878,1102,1491,2256,2444,2613,2748,2964,
+chr22 49231523 49236257 NM_033200 0 - 49231963 49235627 0 14 749,97,112,169,183,97,106,135,142,179,218,29,339,103, 0,857,1389,1608,1851,2106,2278,2452,2723,3084,3334,3687,3831,4631,
+chr22 49231527 49236253 BC002942 0 - 49231963 49236248 0 14 745,97,112,169,183,97,106,135,142,179,218,29,254,99, 0,853,1385,1604,1847,2102,2274,2448,2719,3080,3330,3683,3827,4627,
+chr22 49236815 49248324 NM_014551 0 + 49245061 49247932 0 9 203,102,56,85,69,80,146,84,562, 0,8204,9184,9334,9498,9730,9890,10406,10947,
+chr22 49236816 49252044 BC001298 0 + 49245061 49251832 0 19 202,102,56,85,69,80,146,84,131,72,67,108,54,71,73,69,50,102,455, 0,8203,9183,9333,9497,9729,9889,10405,10946,12721,13299,13497,13742,13937,14099,14257,14427,14577,14773,
+chr22 49236831 49252044 NM_152299 0 + 49245061 49251948 0 20 187,102,56,85,69,80,146,84,131,72,67,108,54,71,73,69,50,102,150,237, 0,8188,9168,9318,9482,9714,9874,10390,10931,12706,13284,13482,13727,13922,14084,14242,14412,14562,14758,14976,
+chr22 49236831 49252044 BC001937 0 + 49236910 49251948 0 20 187,102,56,85,69,80,146,84,131,72,67,108,54,71,73,69,50,102,150,237, 0,8188,9168,9318,9482,9714,9874,10390,10931,12706,13284,13482,13727,13922,14084,14242,14412,14562,14758,14976,
+chr22 49236832 49252043 BC009441 0 + 49236910 49251948 0 20 186,102,56,85,69,80,146,84,131,72,67,108,54,71,73,72,50,102,150,236, 0,8187,9167,9317,9481,9713,9873,10389,10930,12705,13283,13481,13726,13921,14083,14238,14411,14561,14757,14975,
+chr22 49236832 49252043 BC009441 0 + 49245061 49251948 0 20 186,102,56,85,69,80,146,84,131,72,67,108,54,71,73,72,50,102,150,236, 0,8187,9167,9317,9481,9713,9873,10389,10930,12705,13283,13481,13726,13921,14083,14238,14411,14561,14757,14975,
+chr22 49252142 49254116 NM_005138 0 - 49252183 49252984 0 2 855,72, 0,1902,
+chr22 49254324 49258599 NM_001953 0 - 49254342 49258282 0 10 167,141,231,163,119,130,99,203,224,123, 0,249,494,824,1413,1836,2760,3384,3744,4152,
+chr22 49258282 49260395 S72487 0 - 49260065 49260230 0 4 851,117,122,632, 0,1002,1227,1481,
+chr22 49276605 49278685 NM_138433 0 + 49277036 49278524 0 1 2080, 0,
+chr22 49297433 49307022 NM_004377 0 - 49297910 49306488 0 19 561,93,114,153,135,165,117,106,186,196,85,108,78,138,102,178,140,160,64, 0,715,1432,2030,2297,2514,3145,3342,4014,4659,5474,5632,7174,7337,7675,7996,8463,8914,9525,
+chr22 49307530 49311538 NM_005198 0 - 49307753 49311354 0 11 298,82,104,109,82,59,96,134,114,109,408, 0,468,769,1016,1232,1400,1607,2462,2791,3291,3600,
+chr22 49311598 49312310 CR456603 0 + 49311602 49311719 0 2 298,140, 0,572,
+chr22 49329274 49340120 NM_139124 0 + 49329391 49339351 0 11 182,106,93,358,76,173,110,108,71,99,842, 0,1087,2521,4004,4665,4859,5122,5955,6218,9509,10004,
+chr22 49353599 49356720 NM_000487 0 - 49353716 49356345 0 8 437,103,128,125,170,219,241,593, 0,551,908,1126,1563,1806,2138,2528,
+chr22 49353600 49356715 BC014210 0 - 49353716 49356351 0 8 436,103,128,125,170,219,241,588, 0,550,907,1125,1562,1805,2137,2527,
+chr22 49383785 49386505 AK127606 0 - 49384128 49384557 0 1 2720, 0,
+chr22 49466790 49473870 NM_001097 0 + 49466807 49473779 0 5 94,204,284,146,646, 0,1052,1475,5842,6434,
+chr22 49485657 49528078 NM_203477 0 + 49527348 49527714 0 4 241,175,121,852, 0,26034,28087,41569,
+chr22 49496063 49512231 NM_007081 0 - 49497347 49510866 0 9 1383,84,95,112,80,80,30,160,159, 0,1549,1963,2413,8280,9178,10460,14696,16009,
+chr22 49496063 49512231 NM_001003789 0 - 49497347 49510866 0 9 1383,84,98,112,80,80,30,164,159, 0,1549,1963,2413,8280,9178,10460,14696,16009,
+chr22 49496078 49512162 BC075856 0 - 49497347 49510866 0 10 1368,84,125,112,80,80,30,164,155,90, 0,1534,1918,2398,8265,9163,10445,14681,15384,15994,
+chr22 49499795 49512202 BC020495 0 - 49501678 49510866 0 6 1886,80,80,30,160,130, 0,4548,5446,6728,10964,12277,
+chr22 49512368 49517925 AL365511 0 + 49513809 49517553 0 4 225,121,49,462, 0,1376,4953,5095,
+chr22 49512383 49517744 BC019348 0 + 49513809 49517553 0 4 210,121,49,278, 0,1361,4938,5083,
diff -r 3385fbd2af47 -r 342e8ebf1305 test-data/knownGeneUpstream500Flanks.dat
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/knownGeneUpstream500Flanks.dat Fri Nov 07 16:27:07 2008 -0500
@@ -0,0 +1,964 @@
+chr22 14538299 14538799 BC066547 0 - 14537305 14537938 0 1 2759, 0,
+chr22 14572995 14573495 BX248778 0 - 14538811 14539138 0 8 599,91,136,114,112,148,111,90, 0,3606,28020,28374,30241,30473,31890,34115,
+chr22 14824358 14824858 NM_001005239 0 - 14823377 14824358 0 1 981, 0,
+chr22 15341946 15342446 AY026350 0 + 15342479 15343061 0 1 1320, 0,
+chr22 15448254 15448754 NM_014406 0 - 15446320 15447994 0 1 2051, 0,
+chr22 15503751 15504251 AK095032 0 + 15504572 15504974 0 1 2133, 0,
+chr22 15677136 15677636 BC045548 0 - 15639062 15663517 0 4 930,254,345,86, 0,16291,24259,38127,
+chr22 15939911 15940411 NM_014339 0 + 15940535 15965264 0 13 262,25,147,113,127,48,164,84,85,12,102,42,2191, 0,12094,12829,13807,15387,17028,17171,18526,19758,20623,20885,22759,23339,
+chr22 15976697 15977197 NM_031890 0 - 15974834 15976571 0 1 4954, 0,
+chr22 16014723 16015223 NM_033070 0 - 15993464 16014695 0 8 837,189,175,34,94,113,204,154, 0,1029,3538,5577,7503,10927,12021,21605,
+chr22 16020731 16021231 NM_017829 0 - 15993464 16020688 0 8 837,189,175,34,94,113,204,79, 0,1029,3538,5577,7503,10927,12021,27688,
+chr22 16055099 16055599 NM_177405 0 - 16036926 16055022 0 7 2275,203,158,109,91,128,107, 0,2518,3302,9037,10640,12381,20247,
+chr22 16065333 16065833 NM_017424 0 - 16036926 16065121 0 9 2273,203,158,109,91,128,211,220,534, 0,2516,3300,9035,10638,12379,24259,27767,30052,
+chr22 16053967 16054467 AK130623 0 - 16053157 16053556 0 2 33,1379, 0,9814,
+chr22 16330681 16331181 AL832377 0 + 16353079 16407094 0 18 97,184,140,105,50,170,84,154,130,38,92,127,389,129,847,1417,112,498, 0,19807,21814,23035,25486,27251,34217,46516,60164,61581,61701,62054,63473,64900,65218,71210,75088,75907,
+chr22 16330681 16331181 AF336133 0 + 16353079 16407094 0 18 97,184,140,105,50,170,84,210,134,38,92,127,389,129,847,1417,112,1311, 0,19807,21814,23035,25486,27251,34217,46516,60160,61581,61701,62054,63473,64900,65218,71210,75088,75907,
+chr22 16402742 16403242 AK091754 0 + 16403257 16404572 0 4 566,167,112,1299, 0,1239,3027,3846,
+chr22 16417236 16417736 NM_031481 0 + 16437264 16447556 0 11 231,63,220,123,56,91,119,166,155,76,787, 0,6806,19328,20620,20941,22146,22999,26719,27508,29173,29678,
+chr22 16486089 16486589 NM_001696 0 - 16449993 16485955 0 9 578,88,95,69,90,67,110,66,167, 0,2370,6035,7868,8933,20653,21052,27302,36444,
+chr22 16495538 16496038 NM_015367 0 + 16513031 16584854 0 7 168,171,108,157,70,144,2545, 0,16943,44495,50267,57422,63524,87958,
+chr22 16495591 16496091 CR608603 0 + 16513031 16559712 0 6 115,171,108,157,70,1491, 0,16890,44442,50214,57369,63471,
+chr22 16495630 16496130 AL831982 0 + 16513031 16584126 0 5 76,171,108,157,3941, 0,16851,44403,50175,87866,
+chr22 16495644 16496144 BC007658 0 + 16559592 16584854 0 7 62,171,108,157,70,144,2027, 0,16837,44389,50161,57316,63418,87852,
+chr22 16512531 16513031 AF539453 0 + 16513031 16542014 0 5 121,108,98,157,858, 0,27502,28897,33274,70965,
+chr22 16545803 16546303 AF146568 0 + 16546373 16584854 0 4 159,70,144,2545, 0,7157,13259,37693,
+chr22 16631812 16632312 NM_001196 0 - 16592899 16607436 0 6 1452,213,140,211,70,112, 0,3877,5209,9663,15965,40241,
+chr22 16631333 16631833 NM_197966 0 - 16592899 16631009 0 6 1452,213,140,211,70,404, 0,3877,5209,9663,15965,39470,
+chr22 16631732 16632232 AY005151 0 - 16596712 16607436 0 7 93,213,140,95,211,70,32, 0,2518,3850,4583,8304,14606,38882,
+chr22 16634141 16634641 AK097861 0 + 16634856 16635369 0 1 2160, 0,
+chr22 16764147 16764647 CR456364 0 - 16699095 16764132 0 19 343,88,89,187,174,63,113,197,148,97,127,116,258,101,156,102,117,208,279, 0,23224,24249,30162,44203,45495,45648,47359,49810,52133,53609,54571,55049,57773,59167,60203,60956,62957,64874,
+chr22 16721799 16722299 AK124853 0 - 16720930 16721356 0 1 2038, 0,
+chr22 16818604 16819104 AK094477 0 - 16817923 16818349 0 1 2251, 0,
+chr22 16886204 16886704 AK123935 0 + 16894400 16894982 0 2 170,2209, 0,6375,
+chr22 16936204 16936704 AK000085 0 - 16935437 16936076 0 1 1699, 0,
+chr22 16934742 16935242 NM_017929 0 + 16935696 16945395 0 7 125,311,141,296,147,571,1484, 0,373,1951,5514,7189,10049,12064,
+chr22 16967612 16968112 NM_018943 0 + 16968185 16988457 0 5 76,223,149,681,889, 0,10687,13364,15562,20051,
+chr22 17006811 17007311 NM_017414 0 + 17014984 17034138 0 11 232,263,97,146,80,147,96,168,132,50,622, 0,7567,10181,11799,17264,17899,19853,20762,23159,23802,26781,
+chr22 17255070 17255570 AK129567 0 - 17041364 17254957 0 9 428,957,34,62,66,87,25,59,141, 0,5072,202587,203086,205147,210121,213154,213647,219571,
+chr22 17095480 17095980 AK129567 0 + 17096093 17113958 0 9 141,59,25,87,66,62,34,957,428, 0,2118,2645,5616,10596,12660,13187,17955,23553,
+chr22 17218838 17219338 BC090873 0 + 17220451 17220760 0 2 218,1582, 0,1110,
+chr22 17267845 17268345 NM_005675 0 + 17268441 17273756 0 5 206,161,101,141,540, 0,286,3893,4609,5261,
+chr22 17267896 17268396 BC047039 0 + 17272990 17273756 0 5 155,161,101,141,545, 0,235,3842,4558,5210,
+chr22 17298620 17299120 NM_016335 0 - 17275241 17298354 0 15 581,89,99,176,147,93,82,80,117,65,150,35,209,313,164, 0,656,4108,5534,6669,6924,8560,9543,10035,10333,12269,12906,18208,23233,23608,
+chr22 17484458 17484958 NM_005137 0 - 17400931 17484273 0 10 2834,237,153,204,177,77,220,126,123,264, 0,4770,5519,12152,20698,26914,28560,31812,53080,85840,
+chr22 17484474 17484974 CR936871 0 - 17422828 17484273 0 11 2834,237,153,204,177,390,77,211,126,123,280, 0,4770,5519,12152,20698,24278,26914,28560,31812,53080,85840,
+chr22 17495367 17495867 BC069275 0 - 17493484 17494504 0 1 3021, 0,
+chr22 17492843 17493343 NM_053006 0 + 17493466 17494543 0 1 1347, 0,
+chr22 17506716 17507216 NM_022719 0 - 17496262 17506707 0 10 537,116,110,103,134,118,170,96,169,144, 0,1121,3384,4276,5220,5673,5916,8599,8787,10567,
+chr22 17512350 17512850 NM_005315 0 - 17511057 17512350 0 3 105,254,259, 0,672,1034,
+chr22 17540839 17541339 NM_005984 0 - 17538196 17540740 0 9 663,74,116,105,85,139,100,108,193, 0,839,996,1264,1538,2145,2360,2551,2998,
+chr22 17653751 17654251 X95486 0 - 17542285 17653718 0 33 494,40,76,222,171,111,132,150,168,108,164,159,193,184,146,123,235,143,126,164,181,165,138,123,153,201,198,174,114,162,269,208,75, 0,723,1255,3914,8081,8504,11827,16788,17011,20256,21851,28674,29443,30847,36632,40405,41911,42485,43218,44425,45987,46753,50372,53010,53700,53956,55043,56230,59809,63309,74493,96157,112134,
+chr22 17653762 17654262 U60803 0 - 17542285 17653718 0 32 494,40,76,222,111,132,150,168,108,164,159,193,184,146,123,235,143,126,164,181,165,138,123,153,201,198,174,114,162,269,208,86, 0,723,1255,3914,8504,11827,16788,17011,20256,21851,28674,29443,30847,36632,40405,41911,42485,43218,44425,45987,46753,50372,53010,53700,53956,55043,56230,59809,63309,74493,96157,112134,
+chr22 17793773 17794273 NM_003325 0 - 17693516 17793553 0 25 856,89,164,123,106,59,162,149,105,205,162,198,86,216,106,71,114,168,161,96,95,91,111,63,257, 0,20657,22655,23295,25059,25529,26189,28635,30536,31026,44930,47168,52919,54820,57010,57783,61400,63641,66086,67291,75085,76483,77782,80015,100739,
+chr22 17793773 17794273 X75296 0 - 17693516 17770638 0 21 856,89,164,123,106,59,162,198,86,216,106,71,114,168,161,96,95,91,111,63,257, 0,20657,22655,23295,25059,25529,44930,47168,52919,54820,57010,57783,61400,63641,66086,67291,75085,76483,77782,80015,100739,
+chr22 17793773 17794273 X75296 0 - 17693516 17793553 0 21 856,89,164,123,106,59,162,198,86,216,106,71,114,168,161,96,95,91,111,63,257, 0,20657,22655,23295,25059,25529,44930,47168,52919,54820,57010,57783,61400,63641,66086,67291,75085,76483,77782,80015,100739,
+chr22 17772856 17773356 X77633 0 - 17693516 17770638 0 24 508,89,164,123,106,59,162,149,105,205,162,198,86,216,106,71,114,168,161,96,95,91,111,64, 0,20309,22307,22947,24711,25181,25841,28287,30188,30678,44582,46820,52571,54472,56662,57435,61052,63293,65738,66943,74737,76135,77434,79667,
+chr22 17794089 17794589 NM_003776 0 + 17794631 17798039 0 4 95,84,159,434, 0,752,2223,3125,
+chr22 17809774 17810274 NM_173793 0 - 17806341 17809765 0 3 1015,168,33, 0,4002,4289,
+chr22 17841280 17841780 NM_005659 0 - 17812746 17841162 0 12 427,82,89,48,66,69,73,131,122,33,133,121, 0,4431,5362,6269,6535,7753,14884,17555,21369,24750,25152,28765,
+chr22 17841469 17841969 NM_003504 0 + 17842045 17880985 0 19 127,60,93,138,144,56,49,62,51,120,132,99,162,139,84,119,77,66,131, 0,265,1060,2797,3969,14434,16088,17493,19208,25469,27493,27873,28637,34856,35072,36634,36924,38951,40588,
+chr22 17841503 17842003 CR604288 0 + 17842045 17880985 0 19 93,60,93,138,144,56,49,62,51,120,132,99,162,139,84,119,80,66,92, 0,231,1026,2763,3935,14400,16054,17459,19174,25435,27459,27839,28603,34822,35038,36600,36887,38917,40554,
+chr22 17841515 17842015 AJ223728 0 + 17842045 17880985 0 19 81,60,93,140,142,56,49,62,51,120,132,99,162,139,84,119,77,66,120, 0,219,1014,2751,3925,14388,16042,17447,19162,25423,27447,27827,28591,34810,35026,36588,36878,38905,40542,
+chr22 17887414 17887914 NM_003277 0 - 17885675 17886332 0 2 1516,183, 0,2128,
+chr22 18076040 18076540 NM_002688 0 + 18076665 18084561 0 12 168,11,97,87,124,135,118,102,97,136,103,892, 0,317,5138,5342,5651,5856,6085,6304,7176,7358,7773,7964,
+chr22 18076120 18076620 Y11593 0 + 18076665 18084561 0 12 88,11,94,90,124,135,118,102,97,136,103,892, 0,237,5058,5259,5571,5776,6005,6224,7096,7278,7693,7884,
+chr22 18080034 18080534 NM_001009939 0 + 18080814 18084388 0 11 361,97,87,124,135,118,102,97,125,103,892, 0,1144,1348,1657,1862,2091,2310,3182,3375,3779,3970,
+chr22 18085119 18085619 NM_000407 0 + 18085646 18086541 0 2 37,918, 0,311,
+chr22 18118279 18118779 NM_080647 0 + 18121720 18128944 0 9 43,120,376,102,172,156,68,101,944, 0,2855,4202,6538,7452,8255,9055,9199,9686,
+chr22 18118279 18118779 NM_080646 0 + 18121720 18141484 0 9 43,120,376,102,172,156,68,101,324, 0,2855,4202,6538,7452,8255,9055,9199,22517,
+chr22 18118279 18118779 NM_005992 0 + 18121720 18145099 0 10 43,120,376,102,172,156,68,101,120,274, 0,2855,4202,6538,7452,8255,9055,9199,26210,26611,
+chr22 18217016 18217516 NM_053004 0 - 18150785 18183432 0 8 544,216,99,163,126,148,97,120, 0,13584,18242,23868,32181,32811,66026,66403,
+chr22 18217016 18217516 AF238328 0 - 18150694 18183432 0 8 209,114,99,163,126,148,97,120, 0,13685,18241,23867,32180,32810,66025,66402,
+chr22 18216893 18217393 NM_024627 0 - 18213243 18214338 0 3 6341,97,157, 0,8297,8514,
+chr22 18214356 18214856 BC011679 0 - 18213243 18214155 0 1 2045, 0,
+chr22 18294630 18295130 NM_145748 0 - 18239181 18294446 0 18 291,195,98,72,93,96,137,175,92,20,71,63,79,75,145,57,69,197, 0,1523,2573,2849,4662,5105,7808,19890,22522,23532,35860,39697,40248,42626,43343,44026,55513,56840,
+chr22 18300256 18300756 NM_145747 0 - 18239181 18281022 0 18 290,195,98,72,93,96,137,175,92,20,71,63,79,75,145,57,69,197, 0,1522,2572,2848,4661,5104,7807,19889,22521,23531,35859,39696,40247,42625,43342,44025,55512,62465,
+chr22 18304069 18304569 NM_006440 0 - 18239181 18303880 0 18 285,195,98,72,93,96,137,175,92,20,71,63,79,75,145,57,69,292, 0,1517,2567,2843,4656,5099,7802,19884,22516,23526,35854,39691,40242,42620,43337,44020,55507,66178,
+chr22 18303880 18304380 AF201385 0 - 18239187 18303880 0 17 1688,98,72,93,96,137,175,92,20,71,63,79,75,145,57,66,103, 0,2543,2819,4632,5075,7778,19860,22492,23502,35830,39667,40218,42596,43313,43996,55483,66154,
+chr22 18295603 18296103 BX957216 0 - 18257209 18295517 0 12 941,175,92,20,71,63,79,75,145,57,69,93, 0,1147,3779,4789,17117,20954,21505,23883,24600,25283,36770,39174,
+chr22 18303362 18303862 NM_000754 0 + 18324603 18330813 0 6 112,91,289,194,132,472, 0,19413,20741,21780,22382,26750,
+chr22 18303388 18303888 BC000419 0 + 18324870 18330813 0 6 86,91,289,194,132,406, 0,19387,20715,21754,22356,26724,
+chr22 18324123 18324623 NM_007310 0 + 18324753 18330813 0 4 269,194,132,472, 0,1019,1621,5989,
+chr22 18378863 18379363 NM_001670 0 - 18333304 18352871 0 20 848,120,86,54,91,112,199,151,128,72,18,172,118,184,500,527,159,228,54,198, 0,1320,1990,2462,2841,3029,3223,3747,4216,5790,6810,7519,8062,9001,9847,11315,12037,20689,40559,46693,
+chr22 18341288 18341788 AK092664 0 - 18332793 18341119 0 12 846,86,54,91,112,199,151,128,72,172,118,315, 0,1988,2460,2839,3027,3221,3745,4214,5788,7517,8060,8999,
+chr22 18382684 18383184 NM_152906 0 + 18398875 18426739 0 9 139,95,89,120,115,71,154,105,1383, 0,15652,22247,31357,32329,34835,40422,42230,43434,
+chr22 18382690 18383190 CR627452 0 + 18398875 18415836 0 7 21,95,89,120,2805,3366,1845, 0,15646,22241,31351,32323,35410,44323,
+chr22 18382690 18383190 AK092484 0 + 18398875 18426739 0 7 21,95,89,120,154,105,1384, 0,15646,22241,31351,40416,42224,43428,
+chr22 18398494 18398994 AK057461 0 + 18399100 18426739 0 9 177,89,120,115,71,110,20,105,818, 0,6437,15547,16519,19025,24612,24746,26420,27624,
+chr22 18441887 18442387 NM_022720 0 + 18448040 18472185 0 14 73,997,160,143,283,198,102,99,83,101,107,128,114,1851, 0,5376,6851,9358,9665,11124,11558,12498,14402,25866,26281,26960,28579,29714,
+chr22 18447398 18447898 BC078147 0 + 18448040 18472185 0 12 862,160,143,283,198,102,83,101,107,128,114,1846, 0,1340,3847,4154,5613,6047,8891,20355,20770,21449,23068,24203,
+chr22 18479322 18479822 NM_022727 0 - 18474639 18478983 0 12 920,97,117,76,123,112,116,115,182,109,575,363, 0,1036,1243,1557,1811,2699,2886,3090,3391,3797,4163,5008,
+chr22 18479322 18479822 AK057029 0 - 18474850 18478983 0 12 513,97,117,76,123,112,116,115,182,109,575,363, 0,607,814,1128,1382,2270,2457,2661,2962,3368,3734,4579,
1
0
06 Nov '08
details: http://www.bx.psu.edu/hg/galaxy/rev/c7bc4de93fbb
changeset: 1611:c7bc4de93fbb
user: Greg Von Kuster <greg(a)bx.psu.edu>
date: Thu Nov 06 09:44:19 2008 -0500
description:
Create a job_to_output_dataset for the upload tool job.
1 file(s) affected in this change:
lib/galaxy/tools/actions/upload.py
diffs (24 lines):
diff -r 604b4b49e93f -r c7bc4de93fbb lib/galaxy/tools/actions/upload.py
--- a/lib/galaxy/tools/actions/upload.py Wed Nov 05 16:00:35 2008 -0500
+++ b/lib/galaxy/tools/actions/upload.py Thu Nov 06 09:44:19 2008 -0500
@@ -93,6 +93,7 @@
job.state = trans.app.model.Job.states.OK
file_size_str = datatypes.data.nice_size( hda.dataset.file_size )
job.info = "%s, size: %s" % ( hda.info, file_size_str )
+ job.add_output_dataset( hda.name, hda )
job.flush()
log.info( 'job id %d ended ok, file size: %s' % ( job.id, file_size_str ) )
trans.log_event( 'job id %d ended ok, file size: %s' % ( job.id, file_size_str ), tool_id=tool.id )
@@ -112,10 +113,10 @@
data.flush()
trans.history.add_dataset( data )
trans.app.model.flush()
- # Indicate job failure by setting state and message
+ # Indicate job failure by setting state and info
job.state = trans.app.model.Job.states.ERROR
job.info = err_msg
- # If the failure is due to a Galaxy framework exception, save the traceback
+ job.add_output_dataset( data.name, data )
job.flush()
log.info( 'job id %d ended with errors' % job.id )
trans.log_event( 'job id %d ended with errors' % job.id, tool_id=job.tool_id )
1
0
details: http://www.bx.psu.edu/hg/galaxy/rev/604b4b49e93f
changeset: 1610:604b4b49e93f
user: Greg Von Kuster <greg(a)bx.psu.edu>
date: Wed Nov 05 16:00:35 2008 -0500
description:
Monitor memory usage in the JobWrapper.
1 file(s) affected in this change:
lib/galaxy/jobs/__init__.py
diffs (116 lines):
diff -r af3fc2158202 -r 604b4b49e93f lib/galaxy/jobs/__init__.py
--- a/lib/galaxy/jobs/__init__.py Wed Nov 05 15:20:47 2008 -0500
+++ b/lib/galaxy/jobs/__init__.py Wed Nov 05 16:00:35 2008 -0500
@@ -274,6 +274,9 @@
Prepare the job to run by creating the working directory and the
config files.
"""
+ if self.app.memory_usage:
+ # Keep track of memory usage
+ m0 = self.app.memory_usage.memory()
mapping.context.current.clear() #this prevents the metadata reverting that has been seen in conjunction with the PBS job runner
# Create the working directory
self.working_directory = \
@@ -327,6 +330,9 @@
extra_filenames.append( param_filename )
self.param_dict = param_dict
self.extra_filenames = extra_filenames
+ if self.app.memory_usage:
+ m1 = self.app.memory_usage.memory( m0, pretty=True )
+ log.info("End of prepare for job id %d, memory used increased by %s" % ( job.id, m1 ) )
return extra_filenames
def fail( self, message, exception=False ):
@@ -334,6 +340,9 @@
Indicate job failure by setting state and message on all output
datasets.
"""
+ if self.app.memory_usage:
+ # Keep track of memory usage
+ m0 = self.app.memory_usage.memory()
job = model.Job.get( self.job_id )
job.refresh()
# if the job was deleted, don't fail it
@@ -353,10 +362,16 @@
if exception:
job.traceback = traceback.format_exc()
job.flush()
+ if self.app.memory_usage:
+ m1 = self.app.memory_usage.memory( m0, pretty=True )
+ log.info("End of fail for job id %d, memory used increased by %s" % ( job.id, m1 ) )
# If the job was deleted, just clean up
self.cleanup()
def change_state( self, state, info = False ):
+ if self.app.memory_usage:
+ # Keep track of memory usage
+ m0 = self.app.memory_usage.memory()
job = model.Job.get( self.job_id )
job.refresh()
for dataset_assoc in job.output_datasets:
@@ -370,6 +385,9 @@
job.info = info
job.state = state
job.flush()
+ if self.app.memory_usage:
+ m1 = self.app.memory_usage.memory( m0, pretty=True )
+ log.info("End of change_state for job id %d, memory used increased by %s" % ( job.id, m1 ) )
def get_state( self ):
job = model.Job.get( self.job_id )
@@ -393,6 +411,9 @@
job can be dispatched. Otherwise, return JOB_WAIT indicating that input
datasets are still being prepared.
"""
+ if self.app.memory_usage:
+ # Keep track of memory usage
+ m0 = self.app.memory_usage.memory()
job = model.Job.get( self.job_id )
job.refresh()
for dataset_assoc in job.input_datasets:
@@ -412,6 +433,9 @@
elif idata.state != idata.states.OK:
# need to requeue
return JOB_WAIT
+ if self.app.memory_usage:
+ m1 = self.app.memory_usage.memory( m0, pretty=True )
+ log.info("End of check_if_ready_to_run for job id %d, memory used increased by %s" % ( job.id, m1 ) )
if job.state == model.Job.states.DELETED:
return JOB_DELETED
return JOB_READY
@@ -422,6 +446,9 @@
the output datasets based on stderr and stdout from the command, and
the contents of the output files.
"""
+ if self.app.memory_usage:
+ # Keep track of memory usage
+ m0 = self.app.memory_usage.memory()
# default post job setup
mapping.context.current.clear()
job = model.Job.get( self.job_id )
@@ -485,9 +512,15 @@
job.command_line = self.command_line
mapping.context.current.flush()
log.debug( 'job %d ended' % self.job_id )
+ if self.app.memory_usage:
+ m1 = self.app.memory_usage.memory( m0, pretty=True )
+ log.info("End of finish for job id %d, memory used increased by %s" % ( job.id, m1 ) )
self.cleanup()
def cleanup( self ):
+ if self.app.memory_usage:
+ # Keep track of memory usage
+ m0 = self.app.memory_usage.memory()
# remove temporary files
try:
for fname in self.extra_filenames:
@@ -496,6 +529,9 @@
os.rmdir( self.working_directory )
except:
log.exception( "Unable to cleanup job %d" % self.job_id )
+ if self.app.memory_usage:
+ m1 = self.app.memory_usage.memory( m0, pretty=True )
+ log.info("End of cleanup for job id %d, memory used increased by %s" % ( self.job_id, m1 ) )
def get_command_line( self ):
return self.command_line
1
0
05 Nov '08
details: http://www.bx.psu.edu/hg/galaxy/rev/af3fc2158202
changeset: 1609:af3fc2158202
user: Dan Blankenberg <dan(a)bx.psu.edu>
date: Wed Nov 05 15:20:47 2008 -0500
description:
A better test to ensure that a MetadataCollection is not stale.
1 file(s) affected in this change:
lib/galaxy/model/__init__.py
diffs (12 lines):
diff -r 53aa8d34c20a -r af3fc2158202 lib/galaxy/model/__init__.py
--- a/lib/galaxy/model/__init__.py Wed Nov 05 11:43:22 2008 -0500
+++ b/lib/galaxy/model/__init__.py Wed Nov 05 15:20:47 2008 -0500
@@ -188,7 +188,7 @@
return datatypes_registry.get_datatype_by_extension( self.extension )
def get_metadata( self ):
- if not hasattr( self, '_metadata_collection' ) or self._metadata_collection.parent is None: #using weakref to store parent (to prevent circ ref), does a Session.clear() cause parent to be invalidated, while still copying over this non-database attribute?
+ if not hasattr( self, '_metadata_collection' ) or self._metadata_collection.parent != self: #using weakref to store parent (to prevent circ ref), does a Session.clear() cause parent to be invalidated, while still copying over this non-database attribute?
self._metadata_collection = MetadataCollection( self )
return self._metadata_collection
def set_metadata( self, bunch ):
1
0