Can't run JointSNVMix

[ebareke]

Hi,


I am trying to run JointSNVMix by submitting the following command:

python /home/apps/Logiciels/Python/JointSNVMix-0.8-b1/bin/jsm.py
classify joint_fisher /RQexec/barekeer/data/ref/
human_hg18_virginie.fasta /RQexec/barekeer/data/bams_sorted/794_N.bam /
RQexec/barekeer/data/bams_sorted/794_T.bam --out_file /RQexec/barekeer/
scripts/runs/output/jointsnvmix/files/001/794_NT.txt



However, it shows the following error:

usage: JointSNVMix [-h] {train,classify} ...
JointSNVMix: error: unrecognized arguments: /RQexec/barekeer/data/
bams_sorted/794_T.bam


Can anybody explain me what's wrong ?



Thanks.

[aroth]

It looks as though you are using version 0.8-b1, which is a beta of
the next release. In this version the joint_fisher method has been
removed, and the commands are slightly different. I suggest using
version 0.7.5 which is available from the downloads page. The current
documentation applies to the 0.7.x release.

Cheers,
Andy
.