/ New distfiles found via the portscout scanner Fri, 10 Jul 2026 09:08:07 +0000 jwb@freebsd.org portscout v0.8.1, by Shaun Amott /jwb@freebsd.org.html Update found for port biology/samtools: version 1.23.1 to 1.24 jwb@freebsd.org biology/samtools/1.23.1/1.24 Fri, 10 Jul 2026 03:29:02 -0000 biology http://www.freshports.org/biology/samtools/ https://api.github.com/repos/samtools/samtools/tarball/1.24 Fri, 10 Jul 2026 02:03:10 -0000 Fri, 10 Jul 2026 03:29:02 -0000 1.24 samtools 1.23.1 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsamtools /jwb@freebsd.org.html Update found for port biology/salmon: version 1.10.3 to v2.3.2 jwb@freebsd.org biology/salmon/1.10.3/v2.3.2 Fri, 10 Jul 2026 03:26:06 -0000 Fri, 10 Jul 2026 02:02:59 -0000 http://www.freshports.org/biology/salmon/ https://api.github.com/repos/COMBINE-lab/salmon/tarball/v2.3.2 v2.3.2 salmon 1.10.3 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsalmon Fri, 10 Jul 2026 03:26:06 -0000 biology /jwb@freebsd.org.html Update found for port biology/bcftools: version 1.23.1 to 1.24 jwb@freebsd.org biology/bcftools/1.23.1/1.24 Fri, 10 Jul 2026 02:39:42 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbcftools bcftools 1.23.1 1.24 Fri, 10 Jul 2026 02:39:42 -0000 Fri, 10 Jul 2026 02:03:06 -0000 http://www.freshports.org/biology/bcftools/ https://api.github.com/repos/samtools/bcftools/tarball/1.24 biology /jwb@freebsd.org.html Update found for port biology/bbmap: version 39.34 to 39.95 jwb@freebsd.org biology/bbmap/39.34/39.95 Thu, 9 Jul 2026 04:01:39 -0000 39.95 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbbmap bbmap 39.34 Fri, 10 Jul 2026 03:03:28 -0000 Fri, 10 Jul 2026 02:03:00 -0000 http://www.freshports.org/biology/bbmap/ https://deac-fra.dl.sourceforge.net/project/bbmap/BBMap_39.95.tar.gz biology /jwb@freebsd.org.html Update found for port science/csvtk: version 0.37.0 to v0.47.0 jwb@freebsd.org science/csvtk/0.37.0/v0.47.0 Thu, 9 Jul 2026 03:14:28 -0000 science https://api.github.com/repos/golang/sys/tarball/refs/tags/v0.47.0 http://www.freshports.org/science/csvtk/ Fri, 10 Jul 2026 08:01:21 -0000 Fri, 10 Jul 2026 03:49:03 -0000 v0.47.0 csvtk 0.37.0 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Fcsvtk /jwb@freebsd.org.html Update found for port biology/ucsc-userapps: version 474 to 500 jwb@freebsd.org biology/ucsc-userapps/474/500 Wed, 8 Jul 2026 03:23:09 -0000 Fri, 10 Jul 2026 02:03:00 -0000 http://www.freshports.org/biology/ucsc-userapps/ https://hgdownload.cse.ucsc.edu/admin/exe/userApps.archive/userApps.v500.src.tgz ucsc-userapps http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fucsc-userapps 474 500 Fri, 10 Jul 2026 03:28:14 -0000 biology /jwb@freebsd.org.html Update found for port biology/bio-mocha: version 1.20 to 1.23.1 jwb@freebsd.org biology/bio-mocha/1.20/1.23.1 Sun, 5 Jul 2026 03:25:39 -0000 http://www.freshports.org/biology/bio-mocha/ https://api.github.com/repos/samtools/bcftools/tarball/1.23.1 Fri, 10 Jul 2026 02:03:04 -0000 Fri, 10 Jul 2026 03:41:12 -0000 1.23.1 bio-mocha 1.20 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbio-mocha biology /jwb@freebsd.org.html Update found for port devel/mongo-cxx-driver: version 4.0.0 to r4.4.0 jwb@freebsd.org devel/mongo-cxx-driver/4.0.0/r4.4.0 Thu, 25 Jun 2026 03:11:38 -0000 Fri, 10 Jul 2026 02:07:22 -0000 https://api.github.com/repos/mongodb/mongo-cxx-driver/tarball/r4.4.0 http://www.freshports.org/devel/mongo-cxx-driver/ r4.4.0 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fmongo-cxx-driver mongo-cxx-driver 4.0.0 Fri, 10 Jul 2026 02:45:33 -0000 devel /jwb@freebsd.org.html Update found for port biology/mmseqs2: version 17-b804f to vnatbiotech jwb@freebsd.org biology/mmseqs2/17-b804f/vnatbiotech Sat, 20 Jun 2026 19:25:28 -0000 http://www.freshports.org/biology/mmseqs2/ https://api.github.com/repos/soedinglab/MMseqs2/tarball/vNatBiotech Fri, 10 Jul 2026 02:03:05 -0000 Fri, 10 Jul 2026 03:17:21 -0000 vnatbiotech mmseqs2 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fmmseqs2 17-b804f biology /jwb@freebsd.org.html Update found for port biology/bifrost: version 1.3.5 to paper jwb@freebsd.org biology/bifrost/1.3.5/paper Sat, 20 Jun 2026 19:19:28 -0000 bifrost 1.3.5 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbifrost paper Fri, 10 Jul 2026 04:13:55 -0000 Fri, 10 Jul 2026 02:03:11 -0000 https://api.github.com/repos/pmelsted/bifrost/tarball/paper http://www.freshports.org/biology/bifrost/ biology /jwb@freebsd.org.html Update found for port biology/freebayes: version 1.3.9 to v1.3.10 jwb@freebsd.org biology/freebayes/1.3.9/v1.3.10 Sat, 20 Jun 2026 19:10:46 -0000 biology v1.3.10 freebayes 1.3.9 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Ffreebayes Fri, 10 Jul 2026 02:38:15 -0000 Fri, 10 Jul 2026 02:03:08 -0000 https://api.github.com/repos/freebayes/freebayes/tarball/v1.3.10 http://www.freshports.org/biology/freebayes/ /jwb@freebsd.org.html Update found for port biology/ddocent: version 2.7.8 to v2.9.8 jwb@freebsd.org biology/ddocent/2.7.8/v2.9.8 Sat, 20 Jun 2026 19:09:34 -0000 biology Fri, 10 Jul 2026 02:47:27 -0000 ddocent 2.7.8 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fddocent v2.9.8 https://api.github.com/repos/jpuritz/dDocent/tarball/v2.9.8 http://www.freshports.org/biology/ddocent/ Fri, 10 Jul 2026 02:03:09 -0000 /jwb@freebsd.org.html Update found for port biology/bfc: version g20150417 to submitted-v1 jwb@freebsd.org biology/bfc/g20150417/submitted-v1 Sat, 20 Jun 2026 18:46:14 -0000 Fri, 10 Jul 2026 02:03:00 -0000 https://api.github.com/repos/lh3/bfc/tarball/refs/tags/submitted-v1 http://www.freshports.org/biology/bfc/ submitted-v1 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbfc bfc g20150417 Fri, 10 Jul 2026 02:58:39 -0000 biology /jwb@freebsd.org.html Update found for port biology/vcflib: version 1.0.13 to v1.0.15 jwb@freebsd.org biology/vcflib/1.0.13/v1.0.15 Sat, 20 Jun 2026 18:45:48 -0000 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fvcflib vcflib 1.0.13 v1.0.15 Fri, 10 Jul 2026 03:50:15 -0000 Fri, 10 Jul 2026 02:03:11 -0000 http://www.freshports.org/biology/vcflib/ https://api.github.com/repos/vcflib/vcflib/tarball/v1.0.15 /jwb@freebsd.org.html Update found for port sysutils/spcm: version 0.5.8 to 0.5.9 jwb@freebsd.org sysutils/spcm/0.5.8/0.5.9 Sat, 20 Jun 2026 18:42:16 -0000 https://api.github.com/repos/outpaddling/SPCM/tarball/0.5.9 http://www.freshports.org/sysutils/spcm/ Fri, 10 Jul 2026 02:30:06 -0000 Fri, 10 Jul 2026 02:43:27 -0000 0.5.9 0.5.8 spcm http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=sysutils%2Fspcm sysutils /jwb@freebsd.org.html Update found for port biology/sra-tools: version 3.4.1 to vdb-4760-2.9.7 jwb@freebsd.org biology/sra-tools/3.4.1/vdb-4760-2.9.7 Sat, 20 Jun 2026 18:12:59 -0000 https://api.github.com/repos/ncbi/sra-tools/tarball/refs/tags/VDB-4760-2.9.7 http://www.freshports.org/biology/sra-tools/ Fri, 10 Jul 2026 02:03:11 -0000 Fri, 10 Jul 2026 03:24:30 -0000 vdb-4760-2.9.7 3.4.1 sra-tools http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsra-tools biology /jwb@freebsd.org.html Update found for port net/py-google-cloud-pubsub: version 2.32.0 to 2.39.0 jwb@freebsd.org net/py-google-cloud-pubsub/2.32.0/2.39.0 Thu, 4 Jun 2026 03:47:44 -0000 net http://www.freshports.org/net/py-google-cloud-pubsub/ https://pypi.org/packages/source/g/google_cloud_pubsub/google_cloud_pubsub-2.39.0.tar.gz Fri, 10 Jul 2026 02:21:15 -0000 Fri, 10 Jul 2026 04:25:17 -0000 py-google-cloud-pubsub 2.32.0 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=net%2Fpy-google-cloud-pubsub 2.39.0 /jwb@freebsd.org.html Update found for port devel/py-rich-click: version 1.9.7 to 1.9.8 jwb@freebsd.org devel/py-rich-click/1.9.7/1.9.8 Fri, 29 May 2026 04:04:42 -0000 http://www.freshports.org/devel/py-rich-click/ https://pypi.org/packages/source/r/rich_click/rich_click-1.9.8.tar.gz Fri, 10 Jul 2026 02:10:19 -0000 Fri, 10 Jul 2026 03:29:43 -0000 py-rich-click 1.9.7 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fpy-rich-click 1.9.8 devel /jwb@freebsd.org.html Update found for port devel/R-cran-getopt: version 1.20.4 to 1.21.1 jwb@freebsd.org devel/R-cran-getopt/1.20.4/1.21.1 Tue, 28 Apr 2026 03:17:18 -0000 devel http://www.freshports.org/devel/R-cran-getopt/ https://stat.ethz.ch/CRAN/src/contrib/getopt_1.21.1.tar.gz Fri, 10 Jul 2026 02:09:49 -0000 Fri, 10 Jul 2026 04:10:24 -0000 R-cran-getopt 1.20.4 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2FR-cran-getopt 1.21.1 /jwb@freebsd.org.html Update found for port comms/cutecom: version 0.60.0 to 1.00.0 jwb@freebsd.org comms/cutecom/0.60.0/1.00.0 Thu, 23 Apr 2026 03:47:40 -0000 1.00.0 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=comms%2Fcutecom cutecom 0.60.0 Fri, 10 Jul 2026 03:17:15 -0000 Fri, 10 Jul 2026 02:03:47 -0000 https://gitlab.com/cutecom/cutecom/-/archive/v0.60.0-RC1/cutecom-v1.00.0-RC1.tar.bz2 http://www.freshports.org/comms/cutecom/ comms /jwb@freebsd.org.html Update found for port biology/py-pydeseq2: version 0.5.2 to 0.5.4 jwb@freebsd.org biology/py-pydeseq2/0.5.2/0.5.4 Sat, 24 Jan 2026 03:11:05 -0000 biology https://pypi.org/packages/source/p/pydeseq2/pydeseq2-0.5.4.tar.gz http://www.freshports.org/biology/py-pydeseq2/ Fri, 10 Jul 2026 02:03:10 -0000 Fri, 10 Jul 2026 03:29:15 -0000 py-pydeseq2 0.5.2 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pydeseq2 0.5.4 /jwb@freebsd.org.html Update found for port biology/py-pywgsim: version 0.5.2 to 0.6.0 jwb@freebsd.org biology/py-pywgsim/0.5.2/0.6.0 Fri, 13 Jun 2025 03:19:23 -0000 biology http://www.freshports.org/biology/py-pywgsim/ https://pypi.org/packages/source/p/pywgsim/pywgsim-0.6.0.tar.gz Fri, 10 Jul 2026 02:03:00 -0000 Fri, 10 Jul 2026 03:43:00 -0000 py-pywgsim 0.5.2 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pywgsim 0.6.0 /jwb@freebsd.org.html Update found for port biology/py-dna-features-viewer: version 3.1.3 to 3.1.5 jwb@freebsd.org biology/py-dna-features-viewer/3.1.3/3.1.5 Sat, 10 May 2025 03:00:27 -0000 https://pypi.org/packages/source/d/dna_features_viewer/dna_features_viewer-3.1.5.tar.gz http://www.freshports.org/biology/py-dna-features-viewer/ Fri, 10 Jul 2026 02:03:01 -0000 Fri, 10 Jul 2026 03:49:37 -0000 3.1.5 3.1.3 py-dna-features-viewer http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-dna-features-viewer biology /jwb@freebsd.org.html Update found for port biology/subread: version 2.1.0 to 2.1.1 jwb@freebsd.org biology/subread/2.1.0/2.1.1 Fri, 18 Apr 2025 03:15:15 -0000 Fri, 10 Jul 2026 03:08:06 -0000 2.1.1 2.1.0 subread http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsubread https://versaweb.dl.sourceforge.net/project/subread/subread-2.1.1/subread-2.1.1-source.tar.gz http://www.freshports.org/biology/subread/ Fri, 10 Jul 2026 02:02:59 -0000 biology /jwb@freebsd.org.html Update found for port biology/stacks: version 2.68 to 2.69 jwb@freebsd.org biology/stacks/2.68/2.69 Sat, 18 Jan 2025 03:42:59 -0000 biology Fri, 10 Jul 2026 03:30:44 -0000 2.69 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fstacks stacks 2.68 https://catchenlab.life.illinois.edu/stacks/source/stacks-2.69.tar.gz http://www.freshports.org/biology/stacks/ Fri, 10 Jul 2026 02:03:14 -0000 /jwb@freebsd.org.html Update found for port devel/lnphost: version 1.0a to 1.0 jwb@freebsd.org devel/lnphost/1.0a/1.0 Mon, 4 Aug 2014 09:24:33 -0000 devel Fri, 10 Jul 2026 02:08:01 -0000 http://www.freshports.org/devel/lnphost/ http://kaz.dl.sourceforge.net/project/lnphost/OldFiles/lnphost-1.0.zip 1.0 lnphost 1.0a http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Flnphost Fri, 10 Jul 2026 02:41:49 -0000