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### Environment info
Operating System:
OS 10.10.5
Installed version of CUDA and cuDNN:
```
$ ls -l /usr/local/cuda/lib/libcud*
-rwxr-xr-x 1 root wheel 8280 Apr 13 01:02 /usr/local…
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Running make against the current source goes part way, then dies with:
[snip]
-compile-depend:
-do-compile:
[javac] Compiling 55 source files to /gpfs1/blxgrid/tools/bioinfo/app/RDPTools/Xander-…
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Most EasyBuilders need no introduction to what `source_urls`'s churn rate is;
HMMER was just added to the pile and now requires:
- wget http://eddylab.org/software/hmmer3/3.0/hmmer-3.0-linux-intel-x…
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Some issues regarding the results fasta files:
- what are sequences that are annotated as biomap?
- why some have upper and lower case?
- do the individual alignments have some score? threshold?
- ho…
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Dear, lately there have been compilation issues with the AUR package of UGENE.
https://aur.archlinux.org/packages/ugene/
The compilation complains that isinf and isnan are not defined in hmmer3_func…
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```
This is what I try:
> interproscan.sh -i test.fa -f tsv --goterms --pathways
Welcome to InterProScan 5RC4
Running the following analyses:
[jobProDom-2006.1, jobPanther-7.2, jobGene3d-3.3.0, jobSMA…
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I am using the latest Hmmer 3.1b2 with a custom library. There is no description for proteins in the library.
The **hmmer3-text** parser fails on hits with "[No individual domains that satisfy report…
yxngl updated
8 years ago
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```
InterProScan version 5.9-50.0 is affected by this.
The PIRSF matches itself are OK and valid, but the Evalue shown in the result
files (TSV, GFF3 or XML) is incorrect.
It doesn't matter if you …
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```
We are having a problem with speed for interproscan and for nucleotide
sequences that are many it just seems to fail or not end.
We only get one thread on our system even though got many CPU and…
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Hi I'm trying to use PFAM `--retain_pfam_hits` option with TransDecoder.Predict
I'm getting no error or results at all regarding PFAM.
I've downloaded both `Pfam-A.hmm.gz` and `Pfam-B.hmm.gz` and joi…