{bio}[foss/2020a] MetaPhlAn v3.0.9 w/ Python 3.8.2 by manifestoso · Pull Request #12917 · easybuilders/easybuild-easyconfigs

manifestoso · 2021-05-21T05:02:58Z

(created using eb --new-pr)

manifestoso · 2021-05-21T05:07:16Z

Build success dep on ~~#12913, #12915 #12916~~

manifestoso · 2021-05-22T08:53:56Z

@branfosj can we rebuild this one. Thx

branfosj · 2021-05-22T09:07:44Z

@branfosj can we rebuild this one. Thx

Can you run eb --sync-pr 12917, which will update the branch in this PR with the dependencies that have now been merged.

…asyconfigs into 20210521143242_new_pr_MetaPhlAn309

manifestoso · 2021-05-22T10:06:01Z

@branfosj can we rebuild this one. Thx

Can you run eb --sync-pr 12917, which will update the branch in this PR with the dependencies that have now been merged.

No worries, done. Thx

verdurin · 2021-05-25T09:42:46Z

@robqiao could you address the test failures and see if it can use the slightly order version of MAFFT?

manifestoso · 2021-05-28T01:57:20Z

@robqiao could you address the test failures and see if it can use the slightly order version of MAFFT?

@verdurin @branfosj No worries, fixed now.

boegel · 2021-06-06T18:31:58Z

Test report by @boegel
FAILED
Build succeeded for 0 out of 1 (1 easyconfigs in total)
node2617.swalot.os - Linux centos linux 7.9.2009, x86_64, Intel(R) Xeon(R) CPU E5-2660 v3 @ 2.60GHz (haswell), Python 3.6.8
See https://gist.github.com/b833b817999a3bf277106df397ea1821 for a full test report.

boegel · 2021-06-06T18:31:58Z

@robqiao pip check fails in sanity check because several dependencies are missing? See test report...

manifestoso · 2021-11-12T02:10:28Z

deps on #14326

…asyconfigs into 20210521143242_new_pr_MetaPhlAn309

manifestoso · 2021-12-12T22:25:03Z

@verdurin @smoors @lexming proofread this PR?

manifestoso · 2021-12-15T10:31:38Z

deps on PR ~~#14562~~

manifestoso · 2021-12-15T10:37:03Z

deps on ~~#14326~~

manifestoso · 2021-12-15T10:38:28Z

Test report by @robqiao
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
hpc-head01 - Linux UNKNOWN UNKNOWN, x86_64, Intel(R) Xeon(R) Gold 6130 CPU @ 2.10GHz, Python 3.9.6
See https://gist.github.com/1c6988178874c312b58c523c517cd117 for a full test report.

…asyconfigs into 20210521143242_new_pr_MetaPhlAn309

lexming · 2021-12-17T23:19:10Z

@boegelbot: please test @ generoso

boegelbot · 2021-12-17T23:20:09Z

@lexming: Request for testing this PR well received on login1

PR test command 'EB_PR=12917 EB_ARGS= /opt/software/slurm/bin/sbatch --job-name test_PR_12917 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 7512

Test results coming soon (I hope)...

Details

- notification for comment with ID 997086048 processed

Message to humans: this is just bookkeeping information for me,
it is of no use to you (unless you think I have a bug, which I don't).

boegelbot · 2021-12-17T23:21:58Z

Test report by @boegelbot
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
cns1 - Linux rocky linux 8.4, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/00db40d385cd79ce30c52a10c2bf2340 for a full test report.

lexming · 2021-12-17T23:26:17Z

Test report by @lexming
SUCCESS
Build succeeded for 4 out of 4 (1 easyconfigs in total)
node301.hydra.os - Linux centos linux 7.9.2009, x86_64, Intel(R) Xeon(R) Gold 6148 CPU @ 2.40GHz, Python 2.7.5
See https://gist.github.com/8042807adb2b0677c2fb854e33271d59 for a full test report.

lexming · 2021-12-17T23:34:12Z

@boegelbot: please test @ generoso

boegelbot · 2021-12-17T23:35:10Z

@lexming: Request for testing this PR well received on login1

PR test command 'EB_PR=12917 EB_ARGS= /opt/software/slurm/bin/sbatch --job-name test_PR_12917 --ntasks=4 ~/boegelbot/eb_from_pr_upload_generoso.sh' executed!

exit code: 0
output:

Submitted batch job 7513

Test results coming soon (I hope)...

Details

- notification for comment with ID 997090778 processed

Message to humans: this is just bookkeeping information for me,
it is of no use to you (unless you think I have a bug, which I don't).

boegelbot · 2021-12-17T23:37:46Z

Test report by @boegelbot
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
cns1 - Linux rocky linux 8.4, x86_64, Intel(R) Xeon(R) CPU E5-2667 v3 @ 3.20GHz (haswell), Python 3.6.8
See https://gist.github.com/852a747db293c058dd395742afe3be9b for a full test report.

lexming

Thanks for the update @manifestoso . I just made a little fix to the sanity checks, as long as you already check for files inside bin and lib ther is no need to explicitly check for those folders. In this case, you already check for the executables inside bin and since MetaPhlAn is a Python package we must have a site-packages inside lib.

LGTM

lexming · 2021-12-17T23:39:08Z

Going in, thanks @manifestoso !

adding easyconfigs: MetaPhlAn-3.0.9-foss-2020a-Python-3.8.2.eb

beac104

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Syntax fix

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branfosj added the update label May 21, 2021

branfosj added this to the 4.x milestone May 21, 2021

lib PATH +

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Merge branch 'develop' of https://github.com/easybuilders/easybuild-e…

31a8c94

…asyconfigs into 20210521143242_new_pr_MetaPhlAn309

MAFFT ver downgrade to 7.453

0f762c1

manifestoso added 2 commits May 28, 2021 12:01

MAFFT ver typo fix

5dbf312

pip + dep settings turned on

1dfc817

easybuilders deleted a comment from boegelbot Jun 6, 2021

dep issue fix with pip

2f5807f

manifestoso added 2 commits November 12, 2021 13:02

deps +

9b534cd

Merge branch 'develop' of https://github.com/easybuilders/easybuild-e…

f520956

…asyconfigs into 20210521143242_new_pr_MetaPhlAn309

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Merge branch 'develop' of https://github.com/easybuilders/easybuild-e…

082d0c0

…asyconfigs into 20210521143242_new_pr_MetaPhlAn309

dep <- phylophlan +

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manifestoso marked this pull request as draft December 15, 2021 11:16

manifestoso marked this pull request as ready for review December 17, 2021 03:30

Merge branch 'develop' of https://github.com/easybuilders/easybuild-e…

92dba96

…asyconfigs into 20210521143242_new_pr_MetaPhlAn309

fix sanity checks of MetaPhlAn v3.0.9

927d52a

lexming approved these changes Dec 17, 2021

View reviewed changes

lexming modified the milestones: 4.x, 5.0, next release (4.5.2?) Dec 17, 2021

lexming enabled auto-merge December 17, 2021 23:39

lexming merged commit e48194d into easybuilders:develop Dec 17, 2021

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