Entering edit mode
4.4 years ago
Hällyss
▴
90
Hello
I have an error in my segmentation step (cbs) :
Segmenting with method 'cbs', significance threshold 0.0001, in 1 processes
Traceback (most recent call last):
File "/usr/local/bin/cnvkit.py", line 13, in <module>
args.func(args)
File "/usr/local/lib/python2.7/dist-packages/cnvlib/commands.py", line 632, in _cmd_segment
processes=args.processes)
File "/usr/local/lib/python2.7/dist-packages/cnvlib/segmentation/__init__.py", line 61, in do_segmentation
for _, ca in cnarr.by_arm())))
File "/usr/local/lib/python2.7/dist-packages/cnvlib/parallel.py", line 26, in map
return map(func, iterable)
File "/usr/local/lib/python2.7/dist-packages/cnvlib/segmentation/__init__.py", line 86, in _ds
return _do_segmentation(*args)
File "/usr/local/lib/python2.7/dist-packages/cnvlib/segmentation/__init__.py", line 157, in _do_segmentation
seg_out = core.call_quiet(rscript_path, '--vanilla', script_fname)
File "/usr/local/lib/python2.7/dist-packages/cnvlib/core.py", line 36, in call_quiet
% (' '.join(args), err))
RuntimeError: Subprocess command failed:
$ Rscript --vanilla /tmp/tmpMBe2aP
Loading probe coverages into a data frame
Warning message:
In CNA(cbind(tbl$log2), tbl$chromosome, tbl$start, data.type = "logratio", :
markers with missing chrom and/or maploc removed
Segmenting the probe data
Error in segment(cna, weights = tbl$weight, alpha = 1e-04) :
length of weights should be the same as the number of probes
Exécution arrêtée
Can you help me please ?