seqtool error in seqtool vcf melt (for snpEff 4.0)

[zhujack]

During vcf2txt using seqtool error vcf melt, there was an error:

pkg_resources.DistributionNotFound: pylev

Details please see below

module load R/3.0.0; cat SUBJECT/RMS2096/RMS2096blood_DNA/human_g1k_v37.novo/unifieldgenotyper/RMS2096blood_DNA.unifieldgenotyper.annotated.vcf | seqtool vcf melt -i -o SUBJECT/RMS2096/RMS2096blood_DNA/human_g1k_v37.novo/unifieldgenotyper/RMS2096blood_DNA.unifieldgenotyper.annotated.txt -s  RMS2096blood_DNA

 Traceback (most recent call last):
  File "/data/ngs/virtualenv/snakemake/bin/seqtool", line 4, in <module>
   import pkg_resources
  File "/data/ngs/virtualenv/snakemake/lib/python3.3/site-packages/pkg_resources.py", line 3007, in   <module>
working_set.require(__requires__)
  File "/data/ngs/virtualenv/snakemake/lib/python3.3/site-packages/pkg_resources.py", line 728, in require
needed = self.resolve(parse_requirements(requirements))
  File "/data/ngs/virtualenv/snakemake/lib/python3.3/site-packages/pkg_resources.py", line 626, in resolve
raise DistributionNotFound(req)
 pkg_resources.DistributionNotFound: pylev

[seandavi]

Filed this under seqtools on github.

On Thu, Dec 11, 2014 at 9:48 PM, Jack [email protected] wrote:

During vcf2txt using seqtool error vcf melt, there was an error:

pkg_resources.DistributionNotFound: pylev

Details please see below:
$ module load R/3.0.0; cat
SUBJECT/RMS2096/RMS2096blood_DNA/human_g1k_v37.novo/unifieldgenotyper/RMS2096blood_DNA.unifieldgenotyper.annotated.vcf
| seqtool vcf melt -i -o
SUBJECT/RMS2096/RMS2096blood_DNA/human_g1k_v37.novo/unifieldgenotyper/RMS2096blood_DNA.unifieldgenotyper.annotated.txt
-s RMS2096blood_DNA

Traceback (most recent call last):
File "/data/ngs/virtualenv/snakemake/bin/seqtool", line 4, in
import pkg_resources
File
"/data/ngs/virtualenv/snakemake/lib/python3.3/site-packages/pkg_resources.py",
line 3007, in
working_set.require(requires)
File
"/data/ngs/virtualenv/snakemake/lib/python3.3/site-packages/pkg_resources.py",
line 728, in require
needed = self.resolve(parse_requirements(requirements))
File
"/data/ngs/virtualenv/snakemake/lib/python3.3/site-packages/pkg_resources.py",
line 626, in resolve
raise DistributionNotFound(req)
pkg_resources.DistributionNotFound: pylev

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