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@tomkinsc the pipeline stopped with the following information:
subprocess.CalledProcessError: Command '['/datapool/bioinfo/chenchen/01132016ebola/viral-ngs-1.2.1/tools/binaries/V-Phaser-2.0/linux64/va…
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I tried to install the script one step by step, however, i always meet the following problem. It seems by decodes. Anyone can help me?
[admin@bio-server viral-ngs]$ python3.4 taxon_filter.py trim_tri…
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I was using the viral-ngs on the command line to use viral-ngs/intrahost.py vphaser_one_sample when I noticed what I think might be a bug in the calculation of the variant percentage.
When V-Phaser2…
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This may be a quirk of my setup (OSX 10.10.4 with Xcode 6.4 installed and gcc 4.9 via [Homebrew](http://brew.sh/)), but I had to change the variant_caller binary to have the correct location for the l…
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When V-Phaser 2 is tested on the sample file with which it is distributed, 4528.454.indelRealigned.bam, some of the p-values in the resulting .txt files vary from run to run. Only the .txt files vary;…
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The initial description of each subcommand for all of the command line python scripts are missing in http://viral-ngs.readthedocs.org/. They all show up as "Undocumented". The actual documentation of …
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Rename project from miseqpipeline to ngs_mapper
@mmelendrez
Related to #55
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This command:
```
[irina.maljkovicberry@amedwrair13578 ngs_mapper]$ python setup.py build_sphinx
```
yields the following error:
```
zip_safe flag not set; analyzing archive contents...
Installed…
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There is an irritating tab/whitespace issue due to one of our pre-commit hooks. Specifically, it sees leading whitespaces as errors and changes them to tabs. This is mostly an issue for when spaces …