Error: Too many open files

[juanjingmiao]

<type 'exceptions.OSError'>: Too many open files The command was:

    bedtools nuc -fi human_g1k_v37.fasta -bed /tmp/pybedtools.zI01Ry.tmp

Things to check:

    * Too many files open -- please submit a bug report so that this can be fixed

Traceback (most recent call last): File "python2/bin/sv2", line 3, in if name=='main': main() File "python2/lib/python2.7/site-packages/sv2/sv2.py", line 207, in main extract_feats(bam,SV.raw,prefh,featfh,gen,pcrfree,legacy_m,Confs,tmp_dir) File "sv2/FeatureExtraction.pyx", line 18, in sv2.FeatureExtraction.extract_feats File "sv2/FeatureExtraction.pyx", line 204, in sv2.FeatureExtraction.gc_sv File "python2/lib/python2.7/site-packages/pybedtools/bedtool.py", line 650, in decorated result = method(self, *args, **kwargs) File "python2/lib/python2.7/site-packages/pybedtools/bedtool.py", line 230, in wrapped check_stderr=check_stderr) File "python2/lib/python2.7/site-packages/pybedtools/helpers.py", line 440, in call_bedtools raise OSError('See above for commands that gave the error') OSError: See above for commands that gave the error