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Hi, I got a problem just like issus #259. But I didn't find the answer there.
RunPipeline command keeps failing, saying that project dir does not exist (even though the initPipeline completes and s…
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Masurca requires the library insert size and stddev, but these are obtained through read alignment vs the reference. If no reference is provided these values are therefore not defined. Need to require…
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I am setting up this `viral-ngs` package to try out. However, it would be nice to hear some experiences or opinions about using it for data of human pathogenic virus sequenced by an ion torrent proton…
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Hi Leszek,
I ran pyScaf to compare my genome with other closely related species. My main goal was to generate dotplots for them. I ran the command something like this:
```
python /shared/softwa…
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Hi,
How would it be possible to compile [MaSuRCA](ftp://ftp.genome.umd.edu/pub/MaSuRCA/MaSuRCA-3.2.1_09012016.tar.gz) with spack, because it does not uses `configure`,`make` and `make install` instead…
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Hi I'm getting an error during the validate phase running iMetamos:
```
initpipeline -W imetamos -1 UT-1_GTCCGC_L001_R1_001.fastq -2 UT-1_GTCCGC_L001_R2_001.fastq -d /Applications/metAMOS-1.5rc3/Pete…
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Dear Dr. Sergey,
For sample (S002990), I executed following commands. Successfully, I got the outputs for annotation, functional annotation and classify.
# /bin/sh
../initPipeline -q -1 S002990_r1.f…
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I am running into errors when using the test_ima.sh script to test my installation of iMetAMOS. The errors read:
Error, provided contig file does not exist: ftp://ftp.ncbi.nih.gov/genomes/Bacteria…
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When trying to run either run_pipeline_test.sh or runPipeline more generally I get the following sort of error:
```
./run_pipeline_test.sh
Warning: Newbler is not found, some functionality will not b…
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Hi,
I've installed MetAMOS and iMetAMOS on my linux box and tried to run the test pipleine (run_pipeline_test.sh) and got the following warnings and errors:
A few questions:
1) I HAVE definitely inst…