details:
http://www.bx.psu.edu/hg/galaxy/rev/f9cc5deca786
changeset: 2355:f9cc5deca786
user: Anton Nekrutenko <anton(a)bx.psu.edu>
date: Tue Apr 21 09:36:42 2009 -0400
description:
Fixed finf_diag_hits plus a ttypo correction
2 file(s) affected in this change:
tools/metag_tools/short_reads_figure_score.xml
tools/taxonomy/find_diag_hits.py
diffs (38 lines):
diff -r 91e55ed1a0bd -r f9cc5deca786 tools/metag_tools/short_reads_figure_score.xml
--- a/tools/metag_tools/short_reads_figure_score.xml Mon Apr 20 18:34:58 2009 -0400
+++ b/tools/metag_tools/short_reads_figure_score.xml Tue Apr 21 09:36:42 2009 -0400
@@ -78,7 +78,7 @@
|
|
-+- <---- Lower Extreme Value that is no more
- that box length away from the box
+ than box length away from the box
o <---- Outlier
diff -r 91e55ed1a0bd -r f9cc5deca786 tools/taxonomy/find_diag_hits.py
--- a/tools/taxonomy/find_diag_hits.py Mon Apr 20 18:34:58 2009 -0400
+++ b/tools/taxonomy/find_diag_hits.py Tue Apr 21 09:36:42 2009 -0400
@@ -154,20 +154,16 @@
rankName = rank
if out_format:
- cur.execute('select name,rank,N from %s_count where N = 1 and
length(rank)>1' % rank)
+ cur.execute('select name,rank from %s_count where N = 1 and
length(rank)>1' % rank)
for item in cur.fetchall():
- out_string = '%s\t%s\t%d\t' % ( item[0], item[1], item[2] )
+ out_string = '%s\t%s\t' % ( item[0], item[1] )
out_string += rankName
- out_string += '\t'
- out_string += str(taxRank[rankName])
print >>out_file, out_string
else:
cur.execute('select rank, count(*) from %s_count where N = 1 and
length(rank)>1 group by rank' % rank)
for item in cur.fetchall():
out_string = '%s\t%s\t' % ( item[0], item[1] )
out_string += rankName
- out_string += '\t'
- out_string += str(taxRank[rankName])
print >>out_file, out_string
except Exception, e:
stop_err("%s\n" % e)