/ New distfiles found via the portscout scanner Thu, 4 Dec 2025 22:12:42 +0000 jwb@freebsd.org portscout v0.8.1, by Shaun Amott /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 491 Thu, 4 Dec 2025 03:35:06 -0000 biology Thu, 4 Dec 2025 02:02:51 -0000 http://www.freshports.org/biology/ucsc-userapps/ 474 https://hgdownload.cse.ucsc.edu/admin/exe/userApps.archive/userApps.v491.src.tgz ucsc-userapps http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fucsc-userapps /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 http://www.freshports.org/biology/sra-tools/ 3.2.1 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsra-tools sra-tools https://codeload.github.com/https://api.github.com/repos/ncbi/sra-tools/tarball/refs/3.3.0?dummy=/ 3.3.0 Thu, 4 Dec 2025 03:05:32 -0000 Thu, 4 Dec 2025 02:03:00 -0000 biology /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 orthanc-postgresql http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Forthanc-postgresql https://orthanc.uclouvain.be/downloads/sources/orthanc-postgresql/OrthancPostgreSQL-10.0.tar.gz http://www.freshports.org/science/orthanc-postgresql/ 9.0 Thu, 4 Dec 2025 02:21:37 -0000 science 10.0 Thu, 4 Dec 2025 02:57:48 -0000 /jwb@freebsd.org.html Update found for port biology/bbmap: version 39.34 to 39.55 jwb@freebsd.org biology/bbmap/39.34/39.55 Wed, 3 Dec 2025 03:35:36 -0000 Thu, 4 Dec 2025 02:51:39 -0000 39.55 biology Thu, 4 Dec 2025 02:02:50 -0000 39.34 http://www.freshports.org/biology/bbmap/ bbmap https://deac-ams.dl.sourceforge.net/project/bbmap/BBMap_39.55.tar.gz http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbbmap /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 Thu, 4 Dec 2025 02:21:06 -0000 science Thu, 4 Dec 2025 03:33:39 -0000 1.22 orthanc-dicomweb 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 1.21 http://www.freshports.org/science/orthanc-dicomweb/ /jwb@freebsd.org.html Update found for port science/csvtk: version 0.35.0 to v0.38.0 jwb@freebsd.org science/csvtk/0.35.0/v0.38.0 Sun, 9 Nov 2025 03:02:52 -0000 v0.38.0 Thu, 4 Dec 2025 02:58:21 -0000 Thu, 4 Dec 2025 02:21:20 -0000 science http://www.freshports.org/science/csvtk/ 0.35.0 https://codeload.github.com/https://api.github.com/repos/golang/sys/tarball/refs/v0.38.0?dummy=/ csvtk http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=science%2Fcsvtk /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 Thu, 4 Dec 2025 03:10:03 -0000 2.33.0 Thu, 4 Dec 2025 02:20:00 -0000 net 2.32.0 http://www.freshports.org/net/py-google-cloud-pubsub/ py-google-cloud-pubsub 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-2.33.0.tar.gz /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 http://www.freshports.org/biology/py-pydeseq2/ 0.5.2 https://pypi.org/packages/source/p/pydeseq2/pydeseq2-0.5.3.tar.gz py-pydeseq2 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-pydeseq2 0.5.3 Thu, 4 Dec 2025 03:03:23 -0000 biology Thu, 4 Dec 2025 02:02:58 -0000 /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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fmongo-cxx-driver mongo-cxx-driver https://codeload.github.com/https://api.github.com/repos/mongodb/mongo-cxx-driver/r4.1.4?dummy=/ 4.0.0 http://www.freshports.org/devel/mongo-cxx-driver/ devel Thu, 4 Dec 2025 02:06:52 -0000 Thu, 4 Dec 2025 03:26:58 -0000 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 Thu, 4 Dec 2025 02:02:59 -0000 biology Thu, 4 Dec 2025 03:10:17 -0000 1.22.1 samtools https://codeload.github.com/https://api.github.com/repos/samtools/samtools/1.22.1?dummy=/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsamtools 1.22 http://www.freshports.org/biology/samtools/ /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 0.5.2 http://www.freshports.org/biology/py-pywgsim/ py-pywgsim 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 Thu, 4 Dec 2025 03:49:28 -0000 0.6.0 biology Thu, 4 Dec 2025 02:02:51 -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 Thu, 4 Dec 2025 03:17:08 -0000 v1.3.10 Thu, 4 Dec 2025 02:02:57 -0000 biology 1.3.9 http://www.freshports.org/biology/freebayes/ freebayes http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Ffreebayes https://codeload.github.com/https://api.github.com/repos/freebayes/freebayes/v1.3.10?dummy=/ /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 Thu, 4 Dec 2025 02:02:52 -0000 biology 1.21 Thu, 4 Dec 2025 03:16:05 -0000 bio-mocha 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 http://www.freshports.org/biology/bio-mocha/ 1.20 /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=/ vcflib http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fvcflib http://www.freshports.org/biology/vcflib/ 1.0.13 Thu, 4 Dec 2025 02:02:59 -0000 biology v1.0.14 Thu, 4 Dec 2025 03:08:12 -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 py-dna-features-viewer 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 http://www.freshports.org/biology/py-dna-features-viewer/ 3.1.3 biology Thu, 4 Dec 2025 02:02:51 -0000 3.1.5 Thu, 4 Dec 2025 03:41:50 -0000 /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 Thu, 4 Dec 2025 03:19:52 -0000 2.1.1 Thu, 4 Dec 2025 02:02:50 -0000 biology 2.1.0 http://www.freshports.org/biology/subread/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fsubread subread 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 17-b804f http://www.freshports.org/biology/mmseqs2/ http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fmmseqs2 mmseqs2 https://codeload.github.com/https://api.github.com/repos/soedinglab/MMseqs2/vNatBiotech?dummy=/ Thu, 4 Dec 2025 03:25:25 -0000 vnatbiotech Thu, 4 Dec 2025 02:02:54 -0000 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 http://www.freshports.org/biology/stacks/ 2.68 stacks 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 2.69 Thu, 4 Dec 2025 02:50:30 -0000 Thu, 4 Dec 2025 02:03:02 -0000 biology /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 biology Thu, 4 Dec 2025 02:02:57 -0000 Thu, 4 Dec 2025 03:44:31 -0000 v2.9.8 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fddocent ddocent https://codeload.github.com/https://api.github.com/repos/jpuritz/dDocent/v2.9.8?dummy=/ 2.7.8 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 http://www.freshports.org/biology/bifrost/ 1.3.5 bifrost 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 paper Thu, 4 Dec 2025 03:37:48 -0000 Thu, 4 Dec 2025 02:03:00 -0000 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 http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Fpy-rich-click py-rich-click https://pypi.org/packages/source/r/rich-click/rich-click-1.7.4.tar.gz http://www.freshports.org/devel/py-rich-click/ 1.6.1 Thu, 4 Dec 2025 02:09:34 -0000 devel 1.7.4 Thu, 4 Dec 2025 02:39:00 -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=/ spcm http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=sysutils%2Fspcm 0.5.8 http://www.freshports.org/sysutils/spcm/ Thu, 4 Dec 2025 02:26:28 -0000 sysutils Thu, 4 Dec 2025 03:12:07 -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 Thu, 4 Dec 2025 02:02:58 -0000 biology Thu, 4 Dec 2025 02:54:55 -0000 3.5.3 py-deeptools https://pypi.org/packages/source/d/deepTools/deepTools-3.5.3.tar.gz http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fpy-deeptools 3.5.2 http://www.freshports.org/biology/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 https://codeload.github.com/https://api.github.com/repos/lh3/bfc/tarball/refs/submitted-v1?dummy=/ bfc http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=biology%2Fbfc g20150417 http://www.freshports.org/biology/bfc/ biology Thu, 4 Dec 2025 02:02:50 -0000 Thu, 4 Dec 2025 02:59:59 -0000 submitted-v1 /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.freshports.org/devel/lnphost/ 1.0a http://www.freebsd.org/cgi/query-pr-summary.cgi?category=ports&text=devel%2Flnphost lnphost http://kaz.dl.sourceforge.net/project/lnphost/OldFiles/lnphost-1.0.zip 1.0 Thu, 4 Dec 2025 02:52:35 -0000 Thu, 4 Dec 2025 02:07:27 -0000 devel