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{bio}[intel/2018a] bcgTree v1.0.10, HMMER v3.1b2, MUSCLE v3.8.31, Gblocks 0.91b, RAxML 8.2.11 (REVIEW)#6057

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vanzod merged 4 commits intoeasybuilders:developfrom
boegel:20180322094657_new_pr_bcgTree1010
Apr 16, 2018
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{bio}[intel/2018a] bcgTree v1.0.10, HMMER v3.1b2, MUSCLE v3.8.31, Gblocks 0.91b, RAxML 8.2.11 (REVIEW)#6057
vanzod merged 4 commits intoeasybuilders:developfrom
boegel:20180322094657_new_pr_bcgTree1010

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@boegel
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@boegel boegel commented Mar 22, 2018

(created using eb --new-pr)

@boegel boegel added this to the 3.6.0 milestone Mar 22, 2018
@boegel boegel changed the title {bio}[intel/2018a] bcgTree v1.0.10, HMMER v3.1b2, MUSCLE v3.8.31, Gblocks 0.91b, RAxML 8.2.11 {bio}[intel/2018a] bcgTree v1.0.10, HMMER v3.1b2, MUSCLE v3.8.31, Gblocks 0.91b, RAxML 8.2.11 (WIP) Mar 22, 2018
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boegel commented Mar 22, 2018

Marked this as WIP since I'm waiting for feedback on whether bcgTree installations works as expected.

@easybuilders easybuilders deleted a comment from boegelbot Mar 22, 2018
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@boegel I have opened an issue regarding this module #6123

@boegel boegel requested a review from vanzod April 6, 2018 19:36
description = """ MUSCLE is one of the best-performing multiple alignment programs
according to published benchmark tests, with accuracy and speed that are consistently
better than CLUSTALW. MUSCLE can align hundreds of sequences in seconds. Most users
learn everything they need to know about MUSCLE in a few minutes—only a handful of
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there is a non-ascii dash here (which in my case it's triggering an "ordinal not in range" error when I use easybuild from a git repo but not with an easybuild-installed easybuild)

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I'll remove the non-ascii dash, but it like to figure out what the exact problem is with having a unicode character in the description...

I can't reproduce the issue with this easyconfig file, even when using current develop.

I suspect it has something to do with locale settings; I have both $LC_ALL and $LANG set to en_US.utf8, is that different for you?

Same question to @vanzod who was also hitting this issue...

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@boegel regarding locale, same here.

For me the problem is not with using develop per se, it's when using the module created by the install-EasyBuild-develop.sh script, pointing to a git repo.

If I checkout eb353 there the problem doesn't go away. Switching python versions between the system's 2.6.6 and a locally compiled 2.7.14 doesn't help either.

But when I use the easybuild-installed EasyBuild module, there's no problem...

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This problem only occurs when EasyBuild is used from a Git repo because of a bug, see easybuilders/easybuild-framework#2472 .

@boegel boegel changed the title {bio}[intel/2018a] bcgTree v1.0.10, HMMER v3.1b2, MUSCLE v3.8.31, Gblocks 0.91b, RAxML 8.2.11 (WIP) {bio}[intel/2018a] bcgTree v1.0.10, HMMER v3.1b2, MUSCLE v3.8.31, Gblocks 0.91b, RAxML 8.2.11 (REVIEW) Apr 14, 2018
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Test report by @migueldiascosta
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in this PR)
grc-cluster1 - Linux centos 6.9, Intel(R) Xeon(R) CPU E5-2640 0 @ 2.50GHz, Python 2.7.14
See https://gist.github.com/b7a3e7f437bedefb70bb500409513a14 for a full test report.

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boegel commented Apr 16, 2018

Test report by @boegel
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in this PR)
node2105.delcatty.os - Linux centos linux 7.4.1708, Intel(R) Xeon(R) CPU E5-2670 0 @ 2.60GHz, Python 2.7.5
See https://gist.github.com/14680bedd35d0bd0c293566cd18c254d for a full test report.

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boegel commented Apr 16, 2018

Test report by @boegel
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in this PR)
node2540.golett.os - Linux centos linux 7.4.1708, Intel(R) Xeon(R) CPU E5-2680 v3 @ 2.50GHz, Python 2.7.5
See https://gist.github.com/aca075aeba68e92c91f47206a0bb47ba for a full test report.

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vanzod commented Apr 16, 2018

Test report by @vanzod
SUCCESS
Build succeeded for 5 out of 5 (5 easyconfigs in this PR)
cermis - Linux debian 9.4, Intel(R) Xeon(R) CPU E5620 @ 2.40GHz, Python 2.7.13
See https://gist.github.com/55934c7104550cba86f83cae1563ef12 for a full test report.

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vanzod commented Apr 16, 2018

Going in, thanks @boegel!

@vanzod vanzod merged commit 45ea866 into easybuilders:develop Apr 16, 2018
@boegel boegel deleted the 20180322094657_new_pr_bcgTree1010 branch April 16, 2018 16:26
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4 participants