/ New distfiles found via the portscout scanner Tue, 30 Dec 2025 02:04:16 +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 https://codeload.github.com/https://api.github.com/repos/golang/sys/tarball/refs/v0.39.0?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Fcsvtk science csvtk 0.36.0 Mon, 29 Dec 2025 02:23:26 -0000 v0.39.0 Mon, 29 Dec 2025 02:31:30 -0000 http://www.freshports.org/science/csvtk/ /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 vdb-4760-2.9.7 Mon, 29 Dec 2025 03:09:59 -0000 http://www.freshports.org/biology/sra-tools/ Tue, 30 Dec 2025 02:03:26 -0000 3.3.0 biology sra-tools 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=/ /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 biology bbmap Tue, 30 Dec 2025 02:03:14 -0000 39.34 39.60 http://www.freshports.org/biology/bbmap/ Mon, 29 Dec 2025 03:00:33 -0000 https://ixpeering.dl.sourceforge.net/project/bbmap/BBMap_39.60.tar.gz http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbbmap /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 https://codeload.github.com/https://api.github.com/repos/samtools/samtools/1.23?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsamtools 1.22 Tue, 30 Dec 2025 02:03:25 -0000 1.23 Mon, 29 Dec 2025 02:55:17 -0000 http://www.freshports.org/biology/samtools/ biology 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 Mon, 29 Dec 2025 02:57:00 -0000 http://www.freshports.org/net/py-google-cloud-pubsub/ 2.34.0 2.32.0 Mon, 29 Dec 2025 02:19:53 -0000 py-google-cloud-pubsub 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-2.34.0.tar.gz /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 https://codeload.github.com/https://api.github.com/repos/samtools/bcftools/1.23?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbcftools bcftools biology Tue, 30 Dec 2025 02:03:19 -0000 1.22 Mon, 29 Dec 2025 03:55:31 -0000 http://www.freshports.org/biology/bcftools/ 1.23 /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 https://hgdownload.cse.ucsc.edu/admin/exe/userApps.archive/userApps.v491.src.tgz http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fucsc-userapps biology ucsc-userapps Tue, 30 Dec 2025 02:03:15 -0000 474 491 http://www.freshports.org/biology/ucsc-userapps/ Mon, 29 Dec 2025 03:01:21 -0000 /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 orthanc-dicomweb Mon, 29 Dec 2025 02:23:05 -0000 1.21 1.22 http://www.freshports.org/science/orthanc-dicomweb/ Mon, 29 Dec 2025 03:01:47 -0000 https://orthanc.uclouvain.be/downloads/sources/orthanc-dicomweb/OrthancDicomWeb-1.22.tar.gz http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Forthanc-dicomweb /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 py-pydeseq2 biology Tue, 30 Dec 2025 02:03:25 -0000 0.5.2 http://www.freshports.org/biology/py-pydeseq2/ Mon, 29 Dec 2025 03:36:00 -0000 0.5.3 https://pypi.org/packages/source/p/pydeseq2/pydeseq2-0.5.3.tar.gz http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-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 Mon, 29 Dec 2025 02:39:41 -0000 http://www.freshports.org/devel/mongo-cxx-driver/ r4.1.4 4.0.0 Mon, 29 Dec 2025 02:06:49 -0000 mongo-cxx-driver devel http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fmongo-cxx-driver https://codeload.github.com/https://api.github.com/repos/mongodb/mongo-cxx-driver/r4.1.4?dummy=/ /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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pywgsim biology py-pywgsim 0.5.2 Tue, 30 Dec 2025 02:03:15 -0000 0.6.0 Mon, 29 Dec 2025 03:53:30 -0000 http://www.freshports.org/biology/py-pywgsim/ /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 Tue, 30 Dec 2025 02:03:22 -0000 1.3.9 v1.3.10 http://www.freshports.org/biology/freebayes/ Mon, 29 Dec 2025 02:57:14 -0000 biology freebayes https://codeload.github.com/https://api.github.com/repos/freebayes/freebayes/v1.3.10?dummy=/ 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 1.20 Tue, 30 Dec 2025 02:03:17 -0000 Mon, 29 Dec 2025 03:49:39 -0000 http://www.freshports.org/biology/bio-mocha/ 1.21 bio-mocha biology https://codeload.github.com/https://api.github.com/repos/samtools/bcftools/1.21?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbio-mocha /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=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fvcflib vcflib biology Tue, 30 Dec 2025 02:03:25 -0000 1.0.13 http://www.freshports.org/biology/vcflib/ Mon, 29 Dec 2025 02:56:33 -0000 v1.0.14 /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/ Mon, 29 Dec 2025 03:40:45 -0000 3.1.5 Tue, 30 Dec 2025 02:03:16 -0000 3.1.3 py-dna-features-viewer biology 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 /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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsubread 2.1.0 Tue, 30 Dec 2025 02:03:14 -0000 http://www.freshports.org/biology/subread/ Mon, 29 Dec 2025 02:55:02 -0000 2.1.1 subread biology /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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fmmseqs2 https://codeload.github.com/https://api.github.com/repos/soedinglab/MMseqs2/vNatBiotech?dummy=/ http://www.freshports.org/biology/mmseqs2/ Mon, 29 Dec 2025 03:34:30 -0000 vnatbiotech Tue, 30 Dec 2025 02:03:19 -0000 17-b804f mmseqs2 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 stacks 2.69 http://www.freshports.org/biology/stacks/ Mon, 29 Dec 2025 03:22:28 -0000 2.68 Tue, 30 Dec 2025 02:03:29 -0000 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fstacks https://catchenlab.life.illinois.edu/stacks/source/stacks-2.69.tar.gz /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 https://codeload.github.com/https://api.github.com/repos/jpuritz/dDocent/v2.9.8?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fddocent biology ddocent Tue, 30 Dec 2025 02:03:23 -0000 2.7.8 v2.9.8 Mon, 29 Dec 2025 02:39:30 -0000 http://www.freshports.org/biology/ddocent/ /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 https://codeload.github.com/https://api.github.com/repos/pmelsted/bifrost/paper?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbifrost Tue, 30 Dec 2025 02:03:26 -0000 1.3.5 Mon, 29 Dec 2025 03:33:10 -0000 http://www.freshports.org/biology/bifrost/ paper bifrost biology /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 https://pypi.org/packages/source/r/rich-click/rich-click-1.7.4.tar.gz http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fpy-rich-click devel py-rich-click Mon, 29 Dec 2025 02:09:30 -0000 1.6.1 1.7.4 http://www.freshports.org/devel/py-rich-click/ Mon, 29 Dec 2025 02:33:21 -0000 /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 https://codeload.github.com/https://api.github.com/repos/outpaddling/SPCM/0.5.9?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=sysutils%2Fspcm spcm sysutils Mon, 29 Dec 2025 02:26:19 -0000 0.5.8 http://www.freshports.org/sysutils/spcm/ Mon, 29 Dec 2025 03:07:14 -0000 0.5.9 /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 Mon, 29 Dec 2025 02:53:17 -0000 http://www.freshports.org/biology/py-deeptools/ 3.5.2 Tue, 30 Dec 2025 02:03:24 -0000 biology py-deeptools http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-deeptools https://pypi.org/packages/source/d/deepTools/deepTools-3.5.3.tar.gz /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 biology bfc g20150417 Tue, 30 Dec 2025 02:03:14 -0000 submitted-v1 Mon, 29 Dec 2025 03:06:41 -0000 http://www.freshports.org/biology/bfc/ https://codeload.github.com/https://api.github.com/repos/lh3/bfc/tarball/refs/submitted-v1?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbfc /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://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Flnphost http://kaz.dl.sourceforge.net/project/lnphost/OldFiles/lnphost-1.0.zip 1.0 Mon, 29 Dec 2025 03:38:02 -0000 http://www.freshports.org/devel/lnphost/ 1.0a Mon, 29 Dec 2025 02:07:23 -0000 devel lnphost