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On 11/11/10 7:23 AM, Christopher Scharer wrote:
I recently mapped some ChIP-seq data to the mm8 version of the mouse
genome with Bowtie to create a SAM file. However, I can not run MACS on
the mapped data because I keep getting the error below. Any suggestions??
Messages from MACS:
INFO @ Thu, 11 Nov 2010 10:07:30:
# ARGUMENTS LIST:
# name = MACS_in_Galaxy
# format = SAM
# ChIP-seq file =
# control file = None
# effective genome size = 2.70e+09
# tag size = 25
# band width = 300
# model fold = 32
# pvalue cutoff = 1.00e-05
# Ranges for calculating regional lambda are : peak_region,1000,5000,10000
INFO @ Thu, 11 Nov 2010 10:07:30: #1 read tag files...
INFO @ Thu, 11 Nov 2010 10:07:30: #1 read treatment tags...
INFO @ Thu, 11 Nov 2010 10:07:43: 1000000
INFO @ Thu, 11 Nov 2010 10:07:57: 2000000
INFO @ Thu, 11 Nov 2010 10:08:08: 3000000
INFO @ Thu, 11 Nov 2010 10:08:21: 4000000
INFO @ Thu, 11 Nov 2010 10:08:33: 5000000
Traceback (most recent call last):
File "/home/g2main/linux2.6-x86_64/bin/macs", line 273, in
File "/home/g2main/linux2.6-x86_64/bin/macs", line 57, in main
(treat, control) = load_tag_files_options (options)
File "/home/g2main/linux2.6-x86_64/bin/macs", line 252, in
treat = options.build(open2(options.tfile, gzip_flag=options.gzip_flag))
line 1480, in build_fwtrack
(chromosome,fpos,strand) = self.__fw_parse_line(thisline)
line 1500, in __fw_parse_line
bwflag = int(thisfields)
ValueError: invalid literal for int() with base 10: 'CTCF:7:185:443:687'