run mistakes

[czppeter]

Traceback (most recent call last):
File "/gss1/home/zpchen/miniconda3/envs/ribotish/bin/ribotish", line 56, in
main()
File "/gss1/home/zpchen/miniconda3/envs/ribotish/bin/ribotish", line 34, in main
commands[cmd].run(args)
File "/gss1/home/zpchen/miniconda3/envs/ribotish/lib/python2.7/site-packages/ribotish/run/quality.py", line 85, in run
cdsBins = args.bins, numProc = args.numProc, verbose = args.verbose, geneformat = args.geneformat)
File "/gss1/home/zpchen/miniconda3/envs/ribotish/lib/python2.7/site-packages/ribotish/zbio/ribo.py", line 980, in lendis
for result in len_iter:
File "/gss1/home/zpchen/miniconda3/envs/ribotish/lib/python2.7/site-packages/ribotish/zbio/ribo.py", line 942, in _lendis_trans
for r in bam.transReadsIter(bamfile, t, compatible=False, maxNH=maxNH, minMapQ=minMapQ, secondary=secondary, paired=paired, flank=flank):
File "/gss1/home/zpchen/miniconda3/envs/ribotish/lib/python2.7/site-packages/ribotish/zbio/bam.py", line 498, in transReadsIter
for read in rds: #yield read
File "/gss1/home/zpchen/miniconda3/envs/ribotish/lib/python2.7/site-packages/ribotish/zbio/bam.py", line 52, in fetch_reads
if minMapQ is not None and read.mapping_quality < minMapQ : continue
AttributeError: 'csamtools.AlignedRead' object has no attribute 'mapping_quality'

[zhpn1024]

What's your pysam version?

[zhpn1024]

I mean pysam. The latest version of pysam is 0.18.0

[czppeter]

pysam (0.6)

[zhpn1024]

pysam (0.6)

A higher version (pysam >= 0.8.3) is required.
https://github.com/zhpn1024/ribotish/blob/master/INSTALL.rst