/ New distfiles found via the portscout scanner Wed, 22 Jul 2026 14:54:44 +0000 jwb@freebsd.org portscout v0.8.1, by Shaun Amott /jwb@freebsd.org.html Update found for port biology/salmon: version 1.10.3 to v2.3.4 jwb@freebsd.org biology/salmon/1.10.3/v2.3.4 Fri, 17 Jul 2026 02:54:04 -0000 Mon, 20 Jul 2026 02:03:32 -0000 v2.3.4 1.10.3 http://www.freshports.org/biology/salmon/ https://api.github.com/repos/COMBINE-lab/salmon/tarball/v2.3.4 salmon http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsalmon Wed, 22 Jul 2026 02:57:00 -0000 biology /jwb@freebsd.org.html Update found for port biology/bbmap: version 39.34 to 39.97 jwb@freebsd.org biology/bbmap/39.34/39.97 Thu, 16 Jul 2026 02:46:37 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbbmap biology Wed, 22 Jul 2026 03:10:28 -0000 Mon, 20 Jul 2026 02:03:32 -0000 http://www.freshports.org/biology/bbmap/ 39.34 39.97 bbmap https://phoenixnap.dl.sourceforge.net/project/bbmap/BBMap_39.97.tar.gz /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 csvtk https://api.github.com/repos/golang/sys/tarball/refs/tags/v0.47.0 0.37.0 http://www.freshports.org/science/csvtk/ v0.47.0 Mon, 20 Jul 2026 02:28:38 -0000 science Wed, 22 Jul 2026 02:43:26 -0000 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 Wed, 22 Jul 2026 03:04:39 -0000 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fucsc-userapps https://hgdownload.cse.ucsc.edu/admin/exe/userApps.archive/userApps.v500.src.tgz ucsc-userapps 500 http://www.freshports.org/biology/ucsc-userapps/ 474 Mon, 20 Jul 2026 02:03:33 -0000 /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 biology Wed, 22 Jul 2026 04:00:06 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbio-mocha bio-mocha https://api.github.com/repos/samtools/bcftools/tarball/1.23.1 http://www.freshports.org/biology/bio-mocha/ 1.20 1.23.1 Mon, 20 Jul 2026 02:03:36 -0000 /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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fmongo-cxx-driver Wed, 22 Jul 2026 04:29:03 -0000 devel Mon, 20 Jul 2026 02:09:24 -0000 https://api.github.com/repos/mongodb/mongo-cxx-driver/tarball/r4.4.0 mongo-cxx-driver r4.4.0 http://www.freshports.org/devel/mongo-cxx-driver/ 4.0.0 /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 biology Wed, 22 Jul 2026 03:32:21 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fmmseqs2 http://www.freshports.org/biology/mmseqs2/ 17-b804f vnatbiotech mmseqs2 https://api.github.com/repos/soedinglab/MMseqs2/tarball/vNatBiotech Mon, 20 Jul 2026 02:03:38 -0000 /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 paper http://www.freshports.org/biology/bifrost/ 1.3.5 https://api.github.com/repos/pmelsted/bifrost/tarball/paper bifrost Mon, 20 Jul 2026 02:03:46 -0000 Wed, 22 Jul 2026 04:04:53 -0000 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbifrost /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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Ffreebayes Wed, 22 Jul 2026 02:44:35 -0000 biology Mon, 20 Jul 2026 02:03:42 -0000 https://api.github.com/repos/freebayes/freebayes/tarball/v1.3.10 freebayes v1.3.10 1.3.9 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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fddocent Wed, 22 Jul 2026 04:21:04 -0000 biology Mon, 20 Jul 2026 02:03:42 -0000 https://api.github.com/repos/jpuritz/dDocent/tarball/v2.9.8 ddocent v2.9.8 2.7.8 http://www.freshports.org/biology/ddocent/ /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 biology Wed, 22 Jul 2026 03:13:50 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbfc http://www.freshports.org/biology/bfc/ g20150417 submitted-v1 bfc https://api.github.com/repos/lh3/bfc/tarball/refs/tags/submitted-v1 Mon, 20 Jul 2026 02:03:32 -0000 /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 v1.0.15 1.0.13 http://www.freshports.org/biology/vcflib/ https://api.github.com/repos/vcflib/vcflib/tarball/v1.0.15 vcflib Mon, 20 Jul 2026 02:03:45 -0000 Wed, 22 Jul 2026 03:18:46 -0000 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fvcflib /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 Mon, 20 Jul 2026 02:32:11 -0000 https://api.github.com/repos/outpaddling/SPCM/tarball/0.5.9 spcm 0.5.9 http://www.freshports.org/sysutils/spcm/ 0.5.8 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=sysutils%2Fspcm Wed, 22 Jul 2026 04:37:56 -0000 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 biology Wed, 22 Jul 2026 03:42:13 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsra-tools sra-tools https://api.github.com/repos/ncbi/sra-tools/tarball/refs/tags/VDB-4760-2.9.7 http://www.freshports.org/biology/sra-tools/ 3.4.1 vdb-4760-2.9.7 Mon, 20 Jul 2026 02:03:46 -0000 /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 Wed, 22 Jul 2026 04:11:14 -0000 net http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=net%2Fpy-google-cloud-pubsub https://pypi.org/packages/source/g/google_cloud_pubsub/google_cloud_pubsub-2.39.0.tar.gz py-google-cloud-pubsub 2.39.0 2.32.0 http://www.freshports.org/net/py-google-cloud-pubsub/ Mon, 20 Jul 2026 02:27:00 -0000 /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.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fpy-rich-click Wed, 22 Jul 2026 03:43:25 -0000 devel Mon, 20 Jul 2026 02:13:35 -0000 https://pypi.org/packages/source/r/rich_click/rich_click-1.9.8.tar.gz py-rich-click 1.9.8 http://www.freshports.org/devel/py-rich-click/ 1.9.7 /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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2FR-cran-getopt devel Wed, 22 Jul 2026 04:23:59 -0000 Mon, 20 Jul 2026 02:12:54 -0000 R-cran-getopt https://stat.ethz.ch/CRAN/src/contrib/getopt_1.21.1.tar.gz http://www.freshports.org/devel/R-cran-getopt/ 1.20.4 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 Mon, 20 Jul 2026 02:04:29 -0000 cutecom https://gitlab.com/cutecom/cutecom/-/archive/v0.60.0-RC1/cutecom-v1.00.0-RC1.tar.bz2 0.60.0 http://www.freshports.org/comms/cutecom/ 1.00.0 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=comms%2Fcutecom comms Wed, 22 Jul 2026 02:43:27 -0000 /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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pydeseq2 biology Wed, 22 Jul 2026 04:15:58 -0000 Mon, 20 Jul 2026 02:03:44 -0000 py-pydeseq2 https://pypi.org/packages/source/p/pydeseq2/pydeseq2-0.5.4.tar.gz http://www.freshports.org/biology/py-pydeseq2/ 0.5.2 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 Wed, 22 Jul 2026 04:06:47 -0000 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pywgsim https://pypi.org/packages/source/p/pywgsim/pywgsim-0.6.0.tar.gz py-pywgsim 0.6.0 0.5.2 http://www.freshports.org/biology/py-pywgsim/ Mon, 20 Jul 2026 02:03:33 -0000 /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 3.1.5 http://www.freshports.org/biology/py-dna-features-viewer/ 3.1.3 https://pypi.org/packages/source/d/dna_features_viewer/dna_features_viewer-3.1.5.tar.gz py-dna-features-viewer Mon, 20 Jul 2026 02:03:35 -0000 Wed, 22 Jul 2026 04:05:42 -0000 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-dna-features-viewer /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 https://versaweb.dl.sourceforge.net/project/subread/subread-2.1.1/subread-2.1.1-source.tar.gz subread 2.1.1 http://www.freshports.org/biology/subread/ 2.1.0 Mon, 20 Jul 2026 02:03:32 -0000 Wed, 22 Jul 2026 02:44:39 -0000 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsubread /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 2.68 http://www.freshports.org/biology/stacks/ 2.69 stacks https://catchenlab.life.illinois.edu/stacks/source/stacks-2.69.tar.gz Mon, 20 Jul 2026 02:03:49 -0000 biology Wed, 22 Jul 2026 02:45:16 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fstacks /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 Mon, 20 Jul 2026 02:10:20 -0000 lnphost http://kaz.dl.sourceforge.net/project/lnphost/OldFiles/lnphost-1.0.zip http://www.freshports.org/devel/lnphost/ 1.0a 1.0 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Flnphost devel Wed, 22 Jul 2026 03:53:15 -0000