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biology/cd-hit: update to bug-fix release 4.6.6
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Authored by jrm on Oct 7 2016, 7:48 PM.
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swills
AMDmi3
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rP429002: biology/cd-hit: Update to bug-fix release 4.6.6
Summary

biology/cd-hit: update to bug-fix release 4.6.6

Changes in version 4.6.6:
Bug fix for cd-hit-dup in variable length input when write out R1 reads

Changes in version 4.6.5:
Add filter for -aL option so that short sequences will be skipped if not satisfy
representative sequences' -aL requirement. This will make compute faster in
clustering settings where sequences in the same cluster are required to have
similar length using -aL -AL option (e.g. -aL 0.9).

Test Plan

portlint -AC: OK
testport: OK (poudriere: 9.3-RELEASE-p45, i386)
testport: OK (poudriere: 9.3-RELEASE-p45, amd64)
testport: OK (poudriere: 10.3-RELEASE-p7, i386)
testport: OK (poudriere: 10.3-RELEASE-p7, amd64
testport: OK (poudriere: 11.0-RC3, i386)
testport: OK (poudriere: 11.0-RC3, amd64)

Diff Detail

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rP FreeBSD ports repository
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Event Timeline

jrm updated this revision to Diff 21165.Oct 7 2016, 7:48 PM
jrm retitled this revision from to biology/cd-hit: update to bug-fix release 4.6.6.
jrm updated this object.
jrm edited the test plan for this revision. (Show Details)
jrm added reviewers: swills, AMDmi3.
Herald added a subscriber: mat. · View Herald TranscriptOct 7 2016, 7:48 PM
AMDmi3 accepted this revision.Oct 9 2016, 10:50 PM
AMDmi3 edited edge metadata.

s/post-stage/post-install/, otherwise LGTM

This revision is now accepted and ready to land.Oct 9 2016, 10:50 PM
jrm edited edge metadata.Oct 10 2016, 7:19 PM
jrm added a subscriber: bacon4000_gmail.com.
mat added inline comments.Oct 12 2016, 10:50 AM
biology/cd-hit/Makefile
33 ↗(On Diff #21165)

This should be post-install.

jrm updated this revision to Diff 21316.Oct 12 2016, 7:47 PM
jrm edited edge metadata.

Use post-install instead of post-stage for stripping

This revision now requires review to proceed.Oct 12 2016, 7:47 PM
swills accepted this revision.Oct 12 2016, 9:13 PM
swills edited edge metadata.

Approved

This revision is now accepted and ready to land.Oct 12 2016, 9:13 PM
jrm updated this revision to Diff 23060.Dec 18 2016, 3:52 PM
jrm edited edge metadata.
jrm marked an inline comment as done.

Update to chase mat's commit that made the same change to use post-install
instead of post-stage.

This revision now requires review to proceed.Dec 18 2016, 3:52 PM
mat added inline comments.Dec 19 2016, 7:33 PM
biology/cd-hit/Makefile
20 ↗(On Diff #23060)

This is not needed.

jrm updated this revision to Diff 23105.Dec 19 2016, 7:43 PM
jrm edited edge metadata.

Remove PORTREVISION and WRKSRC definitions.

swills accepted this revision.Dec 20 2016, 4:34 PM
swills edited edge metadata.

Approved

This revision is now accepted and ready to land.Dec 20 2016, 4:34 PM
Closed by commit rP429002: biology/cd-hit: Update to bug-fix release 4.6.6 (authored by jrm). · Explain WhyDec 20 2016, 4:48 PM
This revision was automatically updated to reflect the committed changes.
jrm marked an inline comment as done.

Revision Contents
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biology/
cd-hit/
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Diff 23143

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