Add igphyml

[dpryan79]

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• I have read the guidelines for bioconda recipes.
• This PR adds a new recipe.
• AFAIK, this recipe is directly relevant to the biological sciences (otherwise, please submit to the more general purpose conda-forge channel).
• This PR updates an existing recipe.
• This PR does something else (explain below).

[dpryan79]

Xref: #18930

[dpryan79]

@bioconda-bot please fetch artifacts

[BiocondaBot]

Package(s) built on CircleCI are ready for inspection:

Arch	Package	Repodata
linux-64	igphyml-1.0.7-h516909a_0.tar.bz2	repodata.json
osx-64	igphyml-1.0.7-h01d97ff_0.tar.bz2	repodata.json

---

You may also use conda to install these:

• For packages on linux-64:

conda install -c https://84274-42372094-gh.circle-artifacts.com/0/tmp/artifacts/packages <package name>

• For packages on osx-64:

conda install -c https://84278-42372094-gh.circle-artifacts.com/0/tmp/artifacts/packages <package name>

---

Docker image(s) built:

Package	Tag	Install with docker
igphyml	1.0.7--h516909a_0	show curl "https://84274-42372094-gh.circle-artifacts.com/0/tmp/artifacts/images/igphyml%3A1.0.7--h516909a_0.tar.gz" | gzip -dc | docker load

[dpryan79]

@PertuyF Can you see if this works? I'm not entirely sure how this program will work since it really does hardcode the exact path to the motifs in the source code. I've tried making that relative to where the binary is, but I'm suspecting that that won't work and that the source code will have to get modified. That's probably also the only way to make relocatable binaries like would be needed for a conda install.

[PertuyF]

@dpryan79 binary works OK, but we're missing the IGPHYML_PATH variable that should point to $PREFIX/share/igphyml/motifs/ to pass the tests.

And for Linux version I get a warning when setting --threads that binary was not compiled with OpenMP. And I can confirm the behavior is different with a locally built omp-enabled version.

Unfortunately I can't access a machine to test OSX version.

[dpryan79]

I'm amazed that works at all. I guess this needs an activation script. The OMP thing just needs a new -D flag I suspect.

[PertuyF]

For some reason my test file wasn't included for final test phase. Although I think I followed the doc.
Anyway, it is likely better to include the original examples dir (268KB) for users to follow the doc examples.

Can be OK to use these files to run tests, but I can also include my test.fasta in ${PREFIX}/share/igphyml/test/ and save us a few minutes of computation...

[PertuyF]

There is something wrong with tests during mulled-build. Do you have a clue @dpryan79 ?

[dpryan79]

Test files don't make it into the container for testing, since they're not part of the end package (just the recipe). For the mulled tests there's just a binary being called, so the activation scripts are never run.

[PertuyF]

Good job, this looks cleaner!
Just noticed I missed last version, so I'll bump to 1.1.0
After that we can close my initial PR and merge this one.

Next step will be Blas support :)

[dpryan79]

@PertuyF Go ahead and approve this PR and then merge it with @bioconda-bot please merge whenever you're ready.

[PertuyF]

@bioconda-bot please merge

[BiocondaBot]

I will attempt to upload artifacts and merge this PR. This may take some time, please have patience.

[BiocondaBot]

I received an error uploading the build artifacts or merging the PR!

[dpryan79]

Meh, normal merge it is then.

[dpryan79]

It seems there are some networking issues that borked the bot's upload. We'll just use the regular CI then to upload things.

[PertuyF]

Good for me, as long as the package is released!