/ New distfiles found via the portscout scanner Thu, 25 Dec 2025 01:30:45 +0000 jwb@freebsd.org portscout v0.8.1, by Shaun Amott /jwb@freebsd.org.html Update found for port science/csvtk: version 0.36.0 to v0.39.0 jwb@freebsd.org science/csvtk/0.36.0/v0.39.0 Fri, 19 Dec 2025 04:03:42 -0000 http://www.freshports.org/science/csvtk/ csvtk v0.39.0 Wed, 24 Dec 2025 03:16:35 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Fcsvtk science 0.36.0 Tue, 23 Dec 2025 02:29:02 -0000 https://codeload.github.com/https://api.github.com/repos/golang/sys/tarball/refs/v0.39.0?dummy=/ /jwb@freebsd.org.html Update found for port biology/sra-tools: version 3.3.0 to vdb-4760-2.9.7 jwb@freebsd.org biology/sra-tools/3.3.0/vdb-4760-2.9.7 Thu, 18 Dec 2025 03:45:07 -0000 http://www.freshports.org/biology/sra-tools/ sra-tools http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsra-tools biology Tue, 23 Dec 2025 02:03:26 -0000 3.3.0 https://codeload.github.com/https://api.github.com/repos/ncbi/sra-tools/tarball/refs/VDB-4760-2.9.7?dummy=/ Wed, 24 Dec 2025 03:01:13 -0000 vdb-4760-2.9.7 /jwb@freebsd.org.html Update found for port biology/bbmap: version 39.34 to 39.60 jwb@freebsd.org biology/bbmap/39.34/39.60 Thu, 18 Dec 2025 03:09:09 -0000 http://www.freshports.org/biology/bbmap/ bbmap Wed, 24 Dec 2025 02:50:36 -0000 39.60 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbbmap biology Tue, 23 Dec 2025 02:03:14 -0000 39.34 https://ixpeering.dl.sourceforge.net/project/bbmap/BBMap_39.60.tar.gz /jwb@freebsd.org.html Update found for port biology/samtools: version 1.22 to 1.23 jwb@freebsd.org biology/samtools/1.22/1.23 Thu, 18 Dec 2025 02:59:10 -0000 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsamtools Tue, 23 Dec 2025 02:03:24 -0000 https://codeload.github.com/https://api.github.com/repos/samtools/samtools/1.23?dummy=/ 1.22 1.23 Wed, 24 Dec 2025 03:20:58 -0000 http://www.freshports.org/biology/samtools/ samtools /jwb@freebsd.org.html Update found for port net/py-google-cloud-pubsub: version 2.32.0 to 2.34.0 jwb@freebsd.org net/py-google-cloud-pubsub/2.32.0/2.34.0 Wed, 17 Dec 2025 03:23:27 -0000 Wed, 24 Dec 2025 03:06:49 -0000 2.34.0 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=net%2Fpy-google-cloud-pubsub net Tue, 23 Dec 2025 02:27:22 -0000 2.32.0 https://pypi.org/packages/source/g/google_cloud_pubsub/google_cloud_pubsub-2.34.0.tar.gz py-google-cloud-pubsub http://www.freshports.org/net/py-google-cloud-pubsub/ /jwb@freebsd.org.html Update found for port biology/bcftools: version 1.22 to 1.23 jwb@freebsd.org biology/bcftools/1.22/1.23 Wed, 17 Dec 2025 02:54:50 -0000 bcftools http://www.freshports.org/biology/bcftools/ biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbcftools https://codeload.github.com/https://api.github.com/repos/samtools/bcftools/1.23?dummy=/ Tue, 23 Dec 2025 02:03:19 -0000 1.22 1.23 Wed, 24 Dec 2025 03:18:02 -0000 /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 ucsc-userapps http://www.freshports.org/biology/ucsc-userapps/ Wed, 24 Dec 2025 03:24:18 -0000 491 Tue, 23 Dec 2025 02:03:15 -0000 https://hgdownload.cse.ucsc.edu/admin/exe/userApps.archive/userApps.v491.src.tgz 474 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fucsc-userapps biology /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 orthanc-dicomweb http://www.freshports.org/science/orthanc-dicomweb/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Forthanc-dicomweb science Tue, 23 Dec 2025 02:28:46 -0000 1.21 https://orthanc.uclouvain.be/downloads/sources/orthanc-dicomweb/OrthancDicomWeb-1.22.tar.gz Wed, 24 Dec 2025 02:56:11 -0000 1.22 /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 Tue, 23 Dec 2025 02:03:24 -0000 https://pypi.org/packages/source/p/pydeseq2/pydeseq2-0.5.3.tar.gz biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pydeseq2 Wed, 24 Dec 2025 03:49:15 -0000 0.5.3 http://www.freshports.org/biology/py-pydeseq2/ py-pydeseq2 /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 mongo-cxx-driver http://www.freshports.org/devel/mongo-cxx-driver/ 4.0.0 Tue, 23 Dec 2025 02:08:25 -0000 https://codeload.github.com/https://api.github.com/repos/mongodb/mongo-cxx-driver/r4.1.4?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fmongo-cxx-driver devel Wed, 24 Dec 2025 03:11:51 -0000 r4.1.4 /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 py-pywgsim http://www.freshports.org/biology/py-pywgsim/ Tue, 23 Dec 2025 02:03:15 -0000 0.5.2 https://pypi.org/packages/source/p/pywgsim/pywgsim-0.6.0.tar.gz biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pywgsim 0.6.0 Wed, 24 Dec 2025 03:45:50 -0000 /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 Wed, 24 Dec 2025 03:02:18 -0000 v1.3.10 Tue, 23 Dec 2025 02:03:22 -0000 https://codeload.github.com/https://api.github.com/repos/freebayes/freebayes/v1.3.10?dummy=/ 1.3.9 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Ffreebayes biology http://www.freshports.org/biology/freebayes/ freebayes /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 bio-mocha http://www.freshports.org/biology/bio-mocha/ biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbio-mocha Tue, 23 Dec 2025 02:03:17 -0000 1.20 https://codeload.github.com/https://api.github.com/repos/samtools/bcftools/1.21?dummy=/ 1.21 Wed, 24 Dec 2025 03:11:26 -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 vcflib http://www.freshports.org/biology/vcflib/ Wed, 24 Dec 2025 02:59:23 -0000 v1.0.14 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fvcflib biology Tue, 23 Dec 2025 02:03:25 -0000 https://codeload.github.com/https://api.github.com/repos/vcflib/vcflib/v1.0.14?dummy=/ 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 Tue, 23 Dec 2025 02:03:16 -0000 3.1.3 https://pypi.org/packages/source/d/dna_features_viewer/dna_features_viewer-3.1.5.tar.gz biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-dna-features-viewer Wed, 24 Dec 2025 03:32:41 -0000 3.1.5 http://www.freshports.org/biology/py-dna-features-viewer/ 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 http://www.freshports.org/biology/subread/ subread 2.1.1 Wed, 24 Dec 2025 02:36:42 -0000 biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsubread Tue, 23 Dec 2025 02:03:13 -0000 https://versaweb.dl.sourceforge.net/project/subread/subread-2.1.1/subread-2.1.1-source.tar.gz 2.1.0 /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 mmseqs2 http://www.freshports.org/biology/mmseqs2/ Tue, 23 Dec 2025 02:03:19 -0000 17-b804f https://codeload.github.com/https://api.github.com/repos/soedinglab/MMseqs2/vNatBiotech?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fmmseqs2 biology Wed, 24 Dec 2025 02:37:13 -0000 vnatbiotech /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 stacks http://www.freshports.org/biology/stacks/ 2.69 Wed, 24 Dec 2025 02:58:54 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fstacks biology https://catchenlab.life.illinois.edu/stacks/source/stacks-2.69.tar.gz Tue, 23 Dec 2025 02:03:28 -0000 2.68 /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 http://www.freshports.org/biology/ddocent/ ddocent 2.7.8 Tue, 23 Dec 2025 02:03:23 -0000 https://codeload.github.com/https://api.github.com/repos/jpuritz/dDocent/v2.9.8?dummy=/ biology http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fddocent Wed, 24 Dec 2025 03:22:34 -0000 v2.9.8 /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 Wed, 24 Dec 2025 02:46:13 -0000 paper http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbifrost biology Tue, 23 Dec 2025 02:03:26 -0000 https://codeload.github.com/https://api.github.com/repos/pmelsted/bifrost/paper?dummy=/ 1.3.5 http://www.freshports.org/biology/bifrost/ bifrost /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 py-rich-click http://www.freshports.org/devel/py-rich-click/ Wed, 24 Dec 2025 03:18:58 -0000 1.7.4 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fpy-rich-click devel 1.6.1 Tue, 23 Dec 2025 02:12:11 -0000 https://pypi.org/packages/source/r/rich-click/rich-click-1.7.4.tar.gz /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 spcm http://www.freshports.org/sysutils/spcm/ sysutils http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=sysutils%2Fspcm Tue, 23 Dec 2025 02:32:34 -0000 https://codeload.github.com/https://api.github.com/repos/outpaddling/SPCM/0.5.9?dummy=/ 0.5.8 0.5.9 Wed, 24 Dec 2025 02:43:57 -0000 /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 Wed, 24 Dec 2025 03:25:18 -0000 3.5.3 Tue, 23 Dec 2025 02:03:24 -0000 https://pypi.org/packages/source/d/deepTools/deepTools-3.5.3.tar.gz 3.5.2 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-deeptools biology http://www.freshports.org/biology/py-deeptools/ py-deeptools /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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbfc biology g20150417 Tue, 23 Dec 2025 02:03:14 -0000 https://codeload.github.com/https://api.github.com/repos/lh3/bfc/tarball/refs/submitted-v1?dummy=/ Wed, 24 Dec 2025 02:41:27 -0000 submitted-v1 bfc http://www.freshports.org/biology/bfc/ /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 lnphost http://www.freshports.org/devel/lnphost/ Wed, 24 Dec 2025 03:47:50 -0000 1.0 devel http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Flnphost 1.0a Tue, 23 Dec 2025 02:09:12 -0000 http://kaz.dl.sourceforge.net/project/lnphost/OldFiles/lnphost-1.0.zip