On Apr 24, 2012, at 8:36 PM, Michael Moore wrote:
There is apparently a persistent problem with samtools which normally lives
at /usr/bin/samtools. I encountered a similar problem in Python when
uploading BAM files.
I did not resolve the problem. I hacked for a while on binary.py in a
Yeah, I was using ['printenv| mail myaddress samtools'] inside the
subprocess.Popen(['samtools'],... in upload.py.
Now right before in upload.py before the subprocess was called, I had
/usr/bin/ in my PATH, but inside the subprocess the story was different. I
just used the symbolic link to
There is apparently a persistent problem with samtools which normally lives
at /usr/bin/samtools. I encountered a similar problem in Python when
uploading BAM files.
I did not resolve the problem. I hacked for a while on binary.py in a lib/
subdirectory and used os.system to send myself mail