/ New distfiles found via the portscout scanner Mon, 15 Dec 2025 15:52:32 +0000 jwb@freebsd.org portscout v0.8.1, by Shaun Amott /jwb@freebsd.org.html Update found for port biology/vsearch: version 2.30.1 to v2.30.2 jwb@freebsd.org biology/vsearch/2.30.1/v2.30.2 Sat, 13 Dec 2025 02:44:34 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fvsearch http://www.freshports.org/biology/vsearch/ Mon, 15 Dec 2025 03:44:56 -0000 2.30.1 Mon, 15 Dec 2025 02:02:52 -0000 vsearch https://codeload.github.com/https://api.github.com/repos/torognes/vsearch/v2.30.2?dummy=/ v2.30.2 biology /jwb@freebsd.org.html Update found for port biology/bbmap: version 39.34 to 39.58 jwb@freebsd.org biology/bbmap/39.34/39.58 Fri, 12 Dec 2025 02:46:41 -0000 Mon, 15 Dec 2025 02:39:17 -0000 39.34 http://www.freshports.org/biology/bbmap/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbbmap biology 39.58 https://sitsa.dl.sourceforge.net/project/bbmap/BBMap_39.58.tar.gz bbmap Mon, 15 Dec 2025 02:02:49 -0000 /jwb@freebsd.org.html Update found for port science/csvtk: version 0.35.0 to v0.39.0 jwb@freebsd.org science/csvtk/0.35.0/v0.39.0 Tue, 9 Dec 2025 03:46:29 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Fcsvtk http://www.freshports.org/science/csvtk/ Mon, 15 Dec 2025 03:10:16 -0000 0.35.0 Mon, 15 Dec 2025 02:21:13 -0000 csvtk https://codeload.github.com/https://api.github.com/repos/golang/sys/tarball/refs/v0.39.0?dummy=/ v0.39.0 science /jwb@freebsd.org.html Update found for port biology/ucsc-userapps: version 474 to 491 jwb@freebsd.org biology/ucsc-userapps/474/491 Thu, 4 Dec 2025 03:35:06 -0000 Mon, 15 Dec 2025 03:28:42 -0000 474 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fucsc-userapps http://www.freshports.org/biology/ucsc-userapps/ biology ucsc-userapps Mon, 15 Dec 2025 02:02:50 -0000 491 https://hgdownload.cse.ucsc.edu/admin/exe/userApps.archive/userApps.v491.src.tgz /jwb@freebsd.org.html Update found for port biology/sra-tools: version 3.2.1 to 3.3.0 jwb@freebsd.org biology/sra-tools/3.2.1/3.3.0 Wed, 3 Dec 2025 03:48:01 -0000 biology sra-tools Mon, 15 Dec 2025 02:02:59 -0000 3.3.0 https://codeload.github.com/https://api.github.com/repos/ncbi/sra-tools/tarball/refs/3.3.0?dummy=/ Mon, 15 Dec 2025 03:14:19 -0000 3.2.1 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsra-tools http://www.freshports.org/biology/sra-tools/ /jwb@freebsd.org.html Update found for port science/orthanc-postgresql: version 9.0 to 10.0 jwb@freebsd.org science/orthanc-postgresql/9.0/10.0 Wed, 3 Dec 2025 03:44:19 -0000 science https://orthanc.uclouvain.be/downloads/sources/orthanc-postgresql/OrthancPostgreSQL-10.0.tar.gz 10.0 Mon, 15 Dec 2025 02:21:30 -0000 orthanc-postgresql 9.0 Mon, 15 Dec 2025 03:13:15 -0000 http://www.freshports.org/science/orthanc-postgresql/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Forthanc-postgresql /jwb@freebsd.org.html Update found for port science/orthanc-dicomweb: version 1.21 to 1.22 jwb@freebsd.org science/orthanc-dicomweb/1.21/1.22 Wed, 3 Dec 2025 02:44:27 -0000 science https://orthanc.uclouvain.be/downloads/sources/orthanc-dicomweb/OrthancDicomWeb-1.22.tar.gz 1.22 Mon, 15 Dec 2025 02:21:00 -0000 orthanc-dicomweb Mon, 15 Dec 2025 03:29:59 -0000 1.21 http://www.freshports.org/science/orthanc-dicomweb/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Forthanc-dicomweb /jwb@freebsd.org.html Update found for port net/py-google-cloud-pubsub: version 2.32.0 to 2.33.0 jwb@freebsd.org net/py-google-cloud-pubsub/2.32.0/2.33.0 Fri, 31 Oct 2025 03:12:52 -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/ Mon, 15 Dec 2025 02:40:24 -0000 2.32.0 py-google-cloud-pubsub Mon, 15 Dec 2025 02:19:54 -0000 2.33.0 https://pypi.org/packages/source/g/google_cloud_pubsub/google_cloud_pubsub-2.33.0.tar.gz net /jwb@freebsd.org.html Update found for port biology/py-pydeseq2: version 0.5.2 to 0.5.3 jwb@freebsd.org biology/py-pydeseq2/0.5.2/0.5.3 Wed, 29 Oct 2025 02:54:23 -0000 0.5.2 Mon, 15 Dec 2025 02:36:09 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pydeseq2 http://www.freshports.org/biology/py-pydeseq2/ biology py-pydeseq2 Mon, 15 Dec 2025 02:02:58 -0000 0.5.3 https://pypi.org/packages/source/p/pydeseq2/pydeseq2-0.5.3.tar.gz /jwb@freebsd.org.html Update found for port devel/mongo-cxx-driver: version 4.0.0 to r4.1.4 jwb@freebsd.org devel/mongo-cxx-driver/4.0.0/r4.1.4 Sat, 11 Oct 2025 02:42:38 -0000 4.0.0 Mon, 15 Dec 2025 03:19:26 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fmongo-cxx-driver http://www.freshports.org/devel/mongo-cxx-driver/ devel Mon, 15 Dec 2025 02:06:52 -0000 mongo-cxx-driver https://codeload.github.com/https://api.github.com/repos/mongodb/mongo-cxx-driver/r4.1.4?dummy=/ r4.1.4 /jwb@freebsd.org.html Update found for port biology/samtools: version 1.22 to 1.22.1 jwb@freebsd.org biology/samtools/1.22/1.22.1 Wed, 16 Jul 2025 03:57:57 -0000 samtools Mon, 15 Dec 2025 02:02:58 -0000 1.22.1 https://codeload.github.com/https://api.github.com/repos/samtools/samtools/1.22.1?dummy=/ biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsamtools http://www.freshports.org/biology/samtools/ Mon, 15 Dec 2025 02:50:51 -0000 1.22 /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 https://pypi.org/packages/source/p/pywgsim/pywgsim-0.6.0.tar.gz 0.6.0 Mon, 15 Dec 2025 02:02:50 -0000 py-pywgsim biology http://www.freshports.org/biology/py-pywgsim/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pywgsim Mon, 15 Dec 2025 03:51:07 -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 http://www.freshports.org/biology/freebayes/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Ffreebayes Mon, 15 Dec 2025 03:00:47 -0000 1.3.9 v1.3.10 https://codeload.github.com/https://api.github.com/repos/freebayes/freebayes/v1.3.10?dummy=/ freebayes Mon, 15 Dec 2025 02:02:56 -0000 biology /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 Mon, 15 Dec 2025 02:02:52 -0000 bio-mocha https://codeload.github.com/https://api.github.com/repos/samtools/bcftools/1.21?dummy=/ 1.21 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbio-mocha http://www.freshports.org/biology/bio-mocha/ 1.20 Mon, 15 Dec 2025 03:11:57 -0000 /jwb@freebsd.org.html Update found for port biology/vcflib: version 1.0.13 to v1.0.14 jwb@freebsd.org biology/vcflib/1.0.13/v1.0.14 Mon, 19 May 2025 02:38:55 -0000 https://codeload.github.com/https://api.github.com/repos/vcflib/vcflib/v1.0.14?dummy=/ v1.0.14 Mon, 15 Dec 2025 02:02:59 -0000 vcflib biology http://www.freshports.org/biology/vcflib/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fvcflib Mon, 15 Dec 2025 03:39:15 -0000 1.0.13 /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 http://www.freshports.org/biology/py-dna-features-viewer/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-dna-features-viewer 3.1.3 Mon, 15 Dec 2025 03:07:28 -0000 https://pypi.org/packages/source/d/dna_features_viewer/dna_features_viewer-3.1.5.tar.gz 3.1.5 Mon, 15 Dec 2025 02:02:51 -0000 py-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 Mon, 15 Dec 2025 02:59:51 -0000 2.1.0 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsubread http://www.freshports.org/biology/subread/ biology subread Mon, 15 Dec 2025 02:02:49 -0000 2.1.1 https://versaweb.dl.sourceforge.net/project/subread/subread-2.1.1/subread-2.1.1-source.tar.gz /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 Mon, 15 Dec 2025 02:44:21 -0000 17-b804f http://www.freshports.org/biology/mmseqs2/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fmmseqs2 biology https://codeload.github.com/https://api.github.com/repos/soedinglab/MMseqs2/vNatBiotech?dummy=/ vnatbiotech Mon, 15 Dec 2025 02:02:53 -0000 mmseqs2 /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 https://catchenlab.life.illinois.edu/stacks/source/stacks-2.69.tar.gz 2.69 Mon, 15 Dec 2025 02:03:01 -0000 stacks 2.68 Mon, 15 Dec 2025 03:12:23 -0000 http://www.freshports.org/biology/stacks/ 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 https://codeload.github.com/https://api.github.com/repos/jpuritz/dDocent/v2.9.8?dummy=/ ddocent Mon, 15 Dec 2025 02:02:57 -0000 biology http://www.freshports.org/biology/ddocent/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fddocent Mon, 15 Dec 2025 03:46:31 -0000 2.7.8 /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 Mon, 15 Dec 2025 03:20:37 -0000 1.3.5 http://www.freshports.org/biology/bifrost/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbifrost biology paper https://codeload.github.com/https://api.github.com/repos/pmelsted/bifrost/paper?dummy=/ bifrost Mon, 15 Dec 2025 02:02:59 -0000 /jwb@freebsd.org.html Update found for port devel/py-rich-click: version 1.6.1 to 1.7.4 jwb@freebsd.org devel/py-rich-click/1.6.1/1.7.4 Wed, 13 Mar 2024 03:44:49 -0000 Mon, 15 Dec 2025 02:09:34 -0000 py-rich-click https://pypi.org/packages/source/r/rich-click/rich-click-1.7.4.tar.gz 1.7.4 devel http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fpy-rich-click http://www.freshports.org/devel/py-rich-click/ Mon, 15 Dec 2025 03:50:38 -0000 1.6.1 /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 sysutils 0.5.9 https://codeload.github.com/https://api.github.com/repos/outpaddling/SPCM/0.5.9?dummy=/ spcm Mon, 15 Dec 2025 02:26:26 -0000 0.5.8 Mon, 15 Dec 2025 03:00:47 -0000 http://www.freshports.org/sysutils/spcm/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=sysutils%2Fspcm /jwb@freebsd.org.html Update found for port biology/py-deeptools: version 3.5.2 to 3.5.3 jwb@freebsd.org biology/py-deeptools/3.5.2/3.5.3 Wed, 30 Aug 2023 03:19:16 -0000 3.5.3 https://pypi.org/packages/source/d/deepTools/deepTools-3.5.3.tar.gz py-deeptools Mon, 15 Dec 2025 02:02:58 -0000 biology http://www.freshports.org/biology/py-deeptools/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-deeptools 3.5.2 Mon, 15 Dec 2025 02:51:57 -0000 /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 Mon, 15 Dec 2025 02:02:49 -0000 bfc https://codeload.github.com/https://api.github.com/repos/lh3/bfc/tarball/refs/submitted-v1?dummy=/ submitted-v1 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbfc http://www.freshports.org/biology/bfc/ g20150417 Mon, 15 Dec 2025 03:26:37 -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 Mon, 15 Dec 2025 02:07:27 -0000 lnphost http://kaz.dl.sourceforge.net/project/lnphost/OldFiles/lnphost-1.0.zip 1.0 1.0a Mon, 15 Dec 2025 03:44:57 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Flnphost http://www.freshports.org/devel/lnphost/