/ New distfiles found via the portscout scanner Fri, 19 Jun 2026 03:27:18 +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 v2.0.1 jwb@freebsd.org biology/salmon/1.10.3/v2.0.1 Tue, 16 Jun 2026 04:03:55 -0000 biology v2.0.1 Fri, 19 Jun 2026 03:06:53 -0000 1.10.3 salmon https://codeload.github.com/https://api.github.com/repos/COMBINE-lab/salmon/v2.0.1?dummy=/ Fri, 19 Jun 2026 02:03:26 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsalmon http://www.freshports.org/biology/salmon/ /jwb@freebsd.org.html Update found for port biology/ucsc-userapps: version 474 to 499 jwb@freebsd.org biology/ucsc-userapps/474/499 Thu, 11 Jun 2026 02:44:06 -0000 biology 499 Thu, 18 Jun 2026 03:46:52 -0000 474 ucsc-userapps https://hgdownload.cse.ucsc.edu/admin/exe/userApps.archive/userApps.v499.src.tgz Fri, 19 Jun 2026 02:03:27 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fucsc-userapps http://www.freshports.org/biology/ucsc-userapps/ /jwb@freebsd.org.html Update found for port biology/bbmap: version 39.34 to 39.91 jwb@freebsd.org biology/bbmap/39.34/39.91 Wed, 10 Jun 2026 03:41:47 -0000 39.34 Thu, 18 Jun 2026 03:34:56 -0000 39.91 biology http://www.freshports.org/biology/bbmap/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbbmap Fri, 19 Jun 2026 02:03:26 -0000 bbmap https://gigenet.dl.sourceforge.net/project/bbmap/BBMap_39.91.tar.gz /jwb@freebsd.org.html Update found for port science/csvtk: version 0.36.0 to v0.46.0 jwb@freebsd.org science/csvtk/0.36.0/v0.46.0 Tue, 9 Jun 2026 03:44:30 -0000 science v0.46.0 Thu, 18 Jun 2026 03:13:08 -0000 0.36.0 https://codeload.github.com/https://api.github.com/repos/golang/sys/tarball/refs/v0.46.0?dummy=/ csvtk http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Fcsvtk Fri, 19 Jun 2026 02:27:51 -0000 http://www.freshports.org/science/csvtk/ /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 2.32.0 net 2.39.0 Fri, 19 Jun 2026 03:18:22 -0000 py-google-cloud-pubsub https://pypi.org/packages/source/g/google_cloud_pubsub/google_cloud_pubsub-2.39.0.tar.gz Fri, 19 Jun 2026 02:26:08 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=net%2Fpy-google-cloud-pubsub http://www.freshports.org/net/py-google-cloud-pubsub/ /jwb@freebsd.org.html Update found for port devel/mongo-cxx-driver: version 4.0.0 to r4.3.1 jwb@freebsd.org devel/mongo-cxx-driver/4.0.0/r4.3.1 Wed, 3 Jun 2026 03:12:32 -0000 https://codeload.github.com/https://api.github.com/repos/mongodb/mongo-cxx-driver/r4.3.1?dummy=/ mongo-cxx-driver http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fmongo-cxx-driver Fri, 19 Jun 2026 02:08:56 -0000 http://www.freshports.org/devel/mongo-cxx-driver/ 4.0.0 devel r4.3.1 Fri, 19 Jun 2026 02:56:01 -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 1.9.7 Fri, 19 Jun 2026 02:55:41 -0000 devel 1.9.8 Fri, 19 Jun 2026 02:12:54 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fpy-rich-click http://www.freshports.org/devel/py-rich-click/ py-rich-click https://pypi.org/packages/source/r/rich_click/rich_click-1.9.8.tar.gz /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 https://stat.ethz.ch/CRAN/src/contrib/getopt_1.21.1.tar.gz R-cran-getopt http://www.freshports.org/devel/R-cran-getopt/ Fri, 19 Jun 2026 02:12:16 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2FR-cran-getopt 1.20.4 1.21.1 devel Thu, 18 Jun 2026 03:29:26 -0000 /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 comms 1.00.0 Thu, 18 Jun 2026 02:49:56 -0000 0.60.0 cutecom https://gitlab.com/cutecom/cutecom/-/archive/v0.60.0-RC1/cutecom-v1.00.0-RC1.tar.bz2 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=comms%2Fcutecom Fri, 19 Jun 2026 02:04:21 -0000 http://www.freshports.org/comms/cutecom/ /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 Fri, 27 Mar 2026 02:40:38 -0000 3.4.1 Fri, 19 Jun 2026 03:17:09 -0000 vdb-4760-2.9.7 biology http://www.freshports.org/biology/sra-tools/ Fri, 19 Jun 2026 02:03:40 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsra-tools https://codeload.github.com/https://api.github.com/repos/ncbi/sra-tools/tarball/refs/VDB-4760-2.9.7?dummy=/ sra-tools /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, 21 Mar 2026 03:22:09 -0000 https://codeload.github.com/https://api.github.com/repos/vcflib/vcflib/v1.0.15?dummy=/ vcflib Fri, 19 Jun 2026 02:03:39 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fvcflib http://www.freshports.org/biology/vcflib/ 1.0.13 biology v1.0.15 Fri, 19 Jun 2026 02:56:43 -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 py-pydeseq2 https://pypi.org/packages/source/p/pydeseq2/pydeseq2-0.5.4.tar.gz http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pydeseq2 Fri, 19 Jun 2026 02:03:38 -0000 http://www.freshports.org/biology/py-pydeseq2/ biology 0.5.4 Thu, 18 Jun 2026 02:49:58 -0000 0.5.2 /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 py-pywgsim https://pypi.org/packages/source/p/pywgsim/pywgsim-0.6.0.tar.gz Fri, 19 Jun 2026 02:03:27 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pywgsim http://www.freshports.org/biology/py-pywgsim/ biology 0.6.0 Fri, 19 Jun 2026 03:09:04 -0000 0.5.2 /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 Sun, 1 Jun 2025 03:46:07 -0000 1.3.9 v1.3.10 biology Thu, 18 Jun 2026 03:29:39 -0000 https://codeload.github.com/https://api.github.com/repos/freebayes/freebayes/v1.3.10?dummy=/ freebayes http://www.freshports.org/biology/freebayes/ Fri, 19 Jun 2026 02:03:36 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Ffreebayes /jwb@freebsd.org.html Update found for port biology/bio-mocha: version 1.20 to 1.21 jwb@freebsd.org biology/bio-mocha/1.20/1.21 Tue, 27 May 2025 03:32:14 -0000 1.21 biology Thu, 18 Jun 2026 04:06:29 -0000 1.20 https://codeload.github.com/https://api.github.com/repos/samtools/bcftools/1.21?dummy=/ bio-mocha http://www.freshports.org/biology/bio-mocha/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbio-mocha Fri, 19 Jun 2026 02:03:30 -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 3.1.3 Fri, 19 Jun 2026 02:45:03 -0000 3.1.5 biology http://www.freshports.org/biology/py-dna-features-viewer/ Fri, 19 Jun 2026 02:03:29 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-dna-features-viewer https://pypi.org/packages/source/d/dna_features_viewer/dna_features_viewer-3.1.5.tar.gz py-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 2.1.0 biology 2.1.1 Fri, 19 Jun 2026 03:12:38 -0000 https://versaweb.dl.sourceforge.net/project/subread/subread-2.1.1/subread-2.1.1-source.tar.gz subread http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsubread Fri, 19 Jun 2026 02:03:26 -0000 http://www.freshports.org/biology/subread/ /jwb@freebsd.org.html Update found for port biology/mmseqs2: version 17-b804f to vnatbiotech jwb@freebsd.org biology/mmseqs2/17-b804f/vnatbiotech Sun, 26 Jan 2025 02:38:12 -0000 Fri, 19 Jun 2026 02:03:32 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fmmseqs2 http://www.freshports.org/biology/mmseqs2/ https://codeload.github.com/https://api.github.com/repos/soedinglab/MMseqs2/vNatBiotech?dummy=/ mmseqs2 Fri, 19 Jun 2026 02:44:14 -0000 biology vnatbiotech 17-b804f /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 2.69 biology Fri, 19 Jun 2026 02:45:30 -0000 https://catchenlab.life.illinois.edu/stacks/source/stacks-2.69.tar.gz stacks http://www.freshports.org/biology/stacks/ Fri, 19 Jun 2026 02:03:43 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fstacks /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 Fri, 3 May 2024 03:39:47 -0000 v2.9.8 biology Thu, 18 Jun 2026 03:07:16 -0000 2.7.8 https://codeload.github.com/https://api.github.com/repos/jpuritz/dDocent/v2.9.8?dummy=/ ddocent http://www.freshports.org/biology/ddocent/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fddocent Fri, 19 Jun 2026 02:03:36 -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 Tue, 19 Mar 2024 03:40:37 -0000 1.3.5 Thu, 18 Jun 2026 02:57:23 -0000 biology paper http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbifrost Fri, 19 Jun 2026 02:03:40 -0000 http://www.freshports.org/biology/bifrost/ bifrost https://codeload.github.com/https://api.github.com/repos/pmelsted/bifrost/paper?dummy=/ /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 Mon, 4 Mar 2024 03:59:06 -0000 0.5.8 Fri, 19 Jun 2026 02:43:10 -0000 0.5.9 sysutils http://www.freshports.org/sysutils/spcm/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=sysutils%2Fspcm Fri, 19 Jun 2026 02:31:33 -0000 https://codeload.github.com/https://api.github.com/repos/outpaddling/SPCM/0.5.9?dummy=/ spcm /jwb@freebsd.org.html Update found for port biology/bfc: version g20150417 to submitted-v1 jwb@freebsd.org biology/bfc/g20150417/submitted-v1 Tue, 24 Aug 2021 04:41:19 -0000 https://codeload.github.com/https://api.github.com/repos/lh3/bfc/tarball/refs/submitted-v1?dummy=/ bfc http://www.freshports.org/biology/bfc/ Fri, 19 Jun 2026 02:03:26 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbfc submitted-v1 biology Fri, 19 Jun 2026 03:15:56 -0000 g20150417 /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 http://kaz.dl.sourceforge.net/project/lnphost/OldFiles/lnphost-1.0.zip lnphost http://www.freshports.org/devel/lnphost/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Flnphost Fri, 19 Jun 2026 02:09:48 -0000 1.0 devel Fri, 19 Jun 2026 03:14:13 -0000 1.0a