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biology/biostar-tools: Update to 1.10.1_3 

Add sra-tools to metaport deps on aarch64
Clean up pkg-desc
2024Q2
Jason W. Bacon 2024-02-16 07:42:11 -06:00
parent c897a4659f
commit 306ace3962
3 changed files with 18 additions and 15 deletions
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6
biology/biostar-tools/Makefile
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@ -1,6 +1,6 @@
PORTNAME= biostar-tools
PORTVERSION= 1.10.1
PORTREVISION= 2
PORTREVISION= 3
CATEGORIES= biology python
MAINTAINER= jwb@FreeBSD.org
@ -71,8 +71,8 @@ USES= metaport python
.include <bsd.port.pre.mk>
# Allow pkg build on non-amd64 systems until sra-tools supports them
.if ${ARCH} == amd64
# sra-tools is only supported on specific architectures
.if ${ARCH} == amd64 || ${ARCH} == aarch64
RUN_DEPENDS+= sra-tools>0:biology/sra-tools
.endif

2
biology/biostar-tools/distinfo
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@ -1 +1 @@
TIMESTAMP = 1638373720
TIMESTAMP = 1708090899

25
biology/biostar-tools/pkg-descr
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@ -1,16 +1,19 @@
Biostar-Tools is a metaport for installing all the tools necessary to work
through the Biostar Handbook, except for bedGrapToBigWig, which has license
restrictions. If you need bedGraphToBigWig, run
Biostar-Tools is a metaport for installing all the tools necessary to
work through the Biostar Handbook, except for bedGrapToBigWig, which
has license restrictions. If you need bedGraphToBigWig, run
cd /usr/ports/biology/ucsc-userapps && make install clean
The handbook instructs the user to install these tools mostly via bioconda,
which then requires the user to activate the bioconda environment each time
they want to use the tools. This meta-package installs all of the tools
except emboss to the default PATH so they just work without any special
environment. Emboss commands are installed to /usr/local/emboss/bin due to
conflicts with other packages.
You can also install conda packages on FreeBSD. For details, see
The handbook instructs the reader to install these tools mostly via
bioconda, which then requires the user to activate the bioconda
environment each time they want to use the tools. You can also
install conda packages on FreeBSD if you wish. For details, see
/usr/ports/sysutils/linux-miniconda-installer/pkg-descr
This meta-package installs all of the tools except emboss to the
default PATH (normally /usr/local/bin) so they just work without any
special environment. Emboss commands are installed to
/usr/local/emboss/bin due to conflicts with other packages. Run
"biostar-shell" to add the emboss commands to your PATH, and simply
exit the shell to return your PATH to normal.