error running quant3p

[bhykes1]

Hi, I am trying to run quant3p with the following command:

quant3p -n ATG5 -g [genome annotation file] *.bam

,but I keep getting the following error

pkg_resources.DistributionNotFound: quant3p==0.1 [bam_header_read] invalid BAM binary header (this is not a BAM file). [mainsamview] fail to read the header from "-". : line 2: ATG5.htseq/run_1856.R64_Yokoyama_mouse_874.CACATCCT.htseq.out: Permission denied [bam_header_read] EOF marker is absent. The input is probably truncated. Traceback (most recent call last): File "/usr/local/bin/fix-mm", line 5, in from pkg_resources import load_entry_point File "build/bdist.linux-x86_64/egg/pkg_resources/init.py", line 3023, in File "build/bdist.linux-x86_64/egg/pkg_resources/init.py", line 614, in _build_master File "build/bdist.linux-x86_64/egg/pkg_resources/init.py", line 920, in require File "build/bdist.linux-x86_64/egg/pkg_resources/init.py", line 807, in resolve pkg_resources.DistributionNotFound: quant3p==0.1 [bam_header_read] invalid BAM binary header (this is not a BAM file). [main_samview] fail to read the header from "-". quant3p: Error on or near line 121; exiting with status 1

[assaron]

Did you check that the bam files are indeed in the current working directory?

[bhykes1]

It's turns out, it was just an installation error.

thanks

[assaron]

Oh, OK