| Commit message (Collapse) | Author | Age | Files | Lines |
|
|
|
|
|
| |
- Update LICENSE_FILE
Changes: https://metacpan.org/dist/Bio-DB-NCBIHelper/changes
|
|
|
|
|
| |
Changes: https://github.com/veg/hyphy/releases/tag/2.5.58
Sponsored by: The FreeBSD Foundation
|
|
|
|
| |
Reported by: portscout
|
|
|
|
| |
Reported by: portscout
|
|
|
|
| |
ChangeLog: https://github.com/broadinstitute/gatk/releases/tag/4.5.0.0
|
| |
|
|
|
|
|
|
|
| |
- Upstream last release was in 2002
- Upstream advises to use bioloby/lamarc
- Set EXPIRATION_DATE 2024-01-17
- Pet portclippy
|
|
|
|
|
|
| |
- Upstream last release was in 2000
- Set EXPIRATION_DATE 2024-01-17
- Pet portclippy
|
|
|
|
|
| |
- Upstream last update was in 2005
- Set EXPIRATION_DATE 2024-01-17
|
|
|
|
|
|
|
| |
No real changes from 0.3.21
Add patch to resolve conflict with roundup() macro in sys/param.h
Reported by: pkg-fallout
|
|
|
|
|
|
|
| |
Functions that are needed by many other packages or which replace R
functions.
WWW: https://bioconductor.org/packages/Biobase
|
|
|
|
|
|
| |
The package defines many S4 generic functions used in Bioconductor.
WWW: https://bioconductor.org/packages/release/bioc/html/BiocGenerics.html
|
|
|
|
|
|
|
|
|
| |
The BiocManager package, as the modern successor package to
BiocInstaller, allows users to install and manage packages from the
Bioconductor project. Bioconductor focuses on the statistical analysis
and comprehension of high-throughput genomic data.
WWW: https://bioconductor.github.io/BiocManager/
|
|
|
|
|
|
| |
- Bump PORTREVISION of dependent ports for shlib change
Changes: https://github.com/grpc/grpc/releases
|
|
|
|
| |
Reported by: fallout
|
|
|
|
|
|
| |
The code uses the STL method that was remved in C++17.
Reported by: fallout
|
|
|
|
| |
Reported by: portscout
|
|
|
|
| |
PR: 273219
|
|
|
|
|
|
|
|
|
| |
GCTA should modify the LAPACK functios calls, this is a temporary fix.
See <https://github.com/jianyangqt/gcta/issues/59>.
PR: 273219
Approved by: jwb@
|
| |
|
|
|
|
|
|
|
| |
It accepts chardet-5.2.0.
PR: 275630
Approved by: yuri@ (maintainer)
|
|
|
|
| |
PR: 274405
|
|
|
|
| |
Reported by: portscout
|
|
|
|
|
|
|
|
|
| |
According to [1] python-libsbml supports Python 3.11 since version 5.19.2
[1] https://github.com/sbmlteam/python-libsbml/releases/tag/v5.19.2
PR: 275494
Approved by: portmgr (blanket)
|
|
|
|
|
|
|
|
|
| |
According to [1] pysam support Python 3.11 since version 0.21.0
[1] https://github.com/pysam-developers/pysam/releases/tag/v0.21.0
PR: 275494
Approved by: portmgr (blanket)
|
|
|
|
|
|
|
|
|
|
| |
ajfileio.c:271:7: warning: call to undeclared function 'ajSysFuncFgets'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
cp = ajSysFuncFgets(&buff[ipos], isize, file->fp);
^
ajfileio.c:271:5: error: incompatible integer to pointer conversion assigning to 'const char *' from 'int' [-Wint-conversion]
cp = ajSysFuncFgets(&buff[ipos], isize, file->fp);
^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1 warning and 1 error generated.
|
|
|
|
|
|
| |
and bump dependent ports' revisions.
Release notes: https://github.com/oneapi-src/oneTBB/releases/tag/v2021.11.0
|
|
|
|
|
|
|
| |
A few minor enhancements
Changes: https://github.com/torognes/vsearch/releases
Reported by: portscout
|
|
|
|
|
|
|
| |
Minor bugfix release
Changes: https://github.com/pmelsted/bifrost/releases
Reported by: portscout
|
|
|
|
| |
Reported by: portscout
|
|
|
|
|
| |
Changes: https://github.com/veg/hyphy/releases/tag/2.5.57
Sponsored by: The FreeBSD Foundation
|
|
|
|
| |
Reported by: portscout
|
|
|
|
|
|
| |
chimeras_denovo: Allow user to specify mismatch tolerance
Changes: https://github.com/torognes/vsearch/releases
|
|
|
|
|
|
| |
Code updates for modern compilers
Changes: https://github.com/arq5x/bedtools2/releases
|
|
|
|
| |
Reported by: portscout
|
|
|
|
|
|
| |
Changes: https://github.com/veg/hyphy/releases/tag/2.5.56
https://github.com/veg/hyphy/releases/tag/2.5.55
Sponsored by: The FreeBSD Foundation
|
|
|
|
|
|
|
|
| |
Homepage link is permanent redirected to its HTTPS counterpart
Issue reported by repology : https://repology.org/repository/freebsd/problems
Approved by: portmgr (blanket)
PR: 274888
|
|
|
|
| |
Reported by: portscout
|
| |
|
|
|
|
|
|
|
|
| |
Latest biopython and matplotlib compatibility
Changes:
https://github.com/Edinburgh-Genome-Foundry/DnaFeaturesViewer/releases
Reported by: portscout
|
|
|
|
|
|
|
|
| |
Update kallisto index version to 13
A few other new features
Changes: https://github.com/pachterlab/kallisto/releases
Reported by: portscout
|
| |
|
|
|
|
|
|
| |
Reported by: sunpoet
Approved by: jrm (mentor), sunpoet
Differential Revision: https://reviews.freebsd.org/D42412
|
|
|
|
| |
Homepage link is permanent redirected to its HTTPS counterpart
|
| |
|
|
|
|
| |
Homepage link is dead,use last webarchive instead.
|
|
|
|
| |
Reported by: portscout
|
|
|
|
|
|
|
|
| |
The port builds fine without mysql and as MySQL57 is reaching end of
life so optionize MYSQL so that other flavors can be used and still
there is an available pkg for this port.
Approved by: portmgr (blanket)
|
|
|
|
| |
Updates for new libxtend API
|
|
|
|
| |
Updates for new libxtend API
|