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biology/fastqc: Upgrade to 0.11.8

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Minor bug fixes and edge case handling.

Minor Makefile clean up.
This commit is contained in:
Jason W. Bacon 2019-09-21 02:44:54 +00:00
parent 5120fe6f42
commit 8a83d3eb39
Notes: svn2git 2021-03-31 03:12:20 +00:00 
svn path=/head/; revision=512461
3 changed files with 12 additions and 14 deletions
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18
biology/fastqc/Makefile
View file

@ -1,11 +1,10 @@
# $FreeBSD$
PORTNAME= fastqc
DISTVERSIONPREFIX= v
DISTVERSION= 0.11.5
DISTVERSION= 0.11.8
CATEGORIES= biology java perl5
MASTER_SITES= https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
DISTNAME= ${PORTNAME}_${DISTVERSIONPREFIX}${DISTVERSION}
DISTNAME= ${PORTNAME}_v${DISTVERSIONPREFIX}${DISTVERSION}
MAINTAINER= jwb@FreeBSD.org
COMMENT= Quality control tool for high throughput sequence data
@ -13,14 +12,14 @@ COMMENT= Quality control tool for high throughput sequence data
LICENSE= GPLv3
LICENSE_FILE= ${WRKSRC}/LICENSE.txt
NO_ARCH= yes
NO_BUILD= yes
USES= zip perl5 shebangfix
SHEBANG_FILES= fastqc
USE_JAVA= yes
USE_PERL5= run
SHEBANG_FILES= fastqc
NO_ARCH= yes
NO_BUILD= yes
WRKSRC= ${WRKDIR}/FastQC
post-patch:
@ -31,10 +30,9 @@ post-patch:
# Help files are not optional docs, but required for Help menu functionality
do-install:
${MKDIR} ${STAGEDIR}${JAVAJARDIR}/fastqc
@${MKDIR} ${STAGEDIR}${JAVAJARDIR}/fastqc
${INSTALL_DATA} ${WRKSRC}/*.jar ${STAGEDIR}${JAVAJARDIR}/fastqc
${INSTALL_SCRIPT} ${WRKSRC}/fastqc \
${STAGEDIR}${PREFIX}/bin
${INSTALL_SCRIPT} ${WRKSRC}/fastqc ${STAGEDIR}${PREFIX}/bin
cd ${WRKSRC} && ${COPYTREE_SHARE} "Configuration Help Templates" \
${STAGEDIR}${DATADIR}
cd ${WRKSRC} && ${COPYTREE_SHARE} "net org uk" \

6
biology/fastqc/distinfo
View file

@ -1,3 +1,3 @@
TIMESTAMP = 1509737655
SHA256 (fastqc_v0.11.5.zip) = dd7a5ad80ceed2588cf6d6ffe35e0f161c0d9977ed08355f5e4d9473282cbd66
SIZE (fastqc_v0.11.5.zip) = 10026429
TIMESTAMP = 1538750959
SHA256 (fastqc_v0.11.8.zip) = ca87fe77807e4ac796b6cad949858921fd20652c4038f586f05ece94b5022129
SIZE (fastqc_v0.11.8.zip) = 10255059

2
biology/fastqc/pkg-descr
View file

@ -2,6 +2,6 @@ FastQC aims to provide a simple way to do some quality control checks on raw
sequence data coming from high throughput sequencing pipelines. It provides a
modular set of analyses which you can use to give a quick impression of whether
your data has any problems of which you should be aware before doing any
further analysis.
further analysis.
WWW: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/