Macs Raises Error: No Such File Or Directory
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10.6 years ago
Nick ▴ 290

I am trying to run macs14 with sam files from paired-end data + control. Macs14 returns "No such file":

sb7904313:line2 $ macs14 -t /Volumes/Data/G6L2_G6L3/s5/clean_paired_sample.sam -c /Volumes/Data/G6L2_G6L3/s11/clean_paired_sample.sam 
-bash: macs14 -t /Volumes/Data/G6L2_G6L3/s5/clean_paired_sample.sam -c /Volumes/Data/G6L2_G6L3/s11/clean_paired_sample.sam : No such file or directory

Yet the files exist:

sb7904313:line2 $ ls -all /Volumes/Data/G6L2_G6L3/s5/clean_paired_sample.sam
-rw-r--r--  1 nn  staff  24776263204 28 Nov 11:51 /Volumes/Data/G6L2_G6L3/s5/clean_paired_sample.sam
sb7904313:line2 $ ls -all /Volumes/Data/G6L2_G6L3/s11/clean_paired_sample.sam
-rw-r--r--  1 nn  staff  14223812120 28 Nov 12:19 /Volumes/Data/G6L2_G6L3/s11/clean_paired_sample.sam

Macs14 seems to be correctly installed:

sb7904313:line2 $ macs14 --version
macs14 1.4.2 20120305

I am just stumped. Can you give advice?

macs paired-end • 3.0k views
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Note how your error comes from bash not not macs14 (that is python script and would raise a python traceback), the alternative is that you are running in a place where the tool does not have write permissions etc

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You are right - it seems that the permissions on my mac got corrupted. Running macs on my ubuntu laptop worked as expected.

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