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b015f88dce69c94aafb488151ebf0b15aec9222d
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160612 Commits

Author SHA1 Message Date
Hugo Buddelmeijer
b015f88dce gnu: python-xmldiff: Update to 3.0b1. 
* gnu/packages/python-xyz.scm (python-xmldiff): Update to 3.0b1.
[source]: Switch to git-fetch.

Change-Id: Ib83b5d60f2260b88d6ebe7939e4343381993f15c
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 15:49:15 +00:00
Vinicius Monego
05f6e5887e gnu: Add python-iminuit. 
* gnu/packages/python-science.scm (python-iminuit): New variable.

Change-Id: I65da990dda737fd744e22d83007c736a92a8ec0a
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 15:16:51 +00:00
Vinicius Monego
9186b39eea gnu: Add python-numba-stats. 
* gnu/packages/python-science.scm (python-numba-stats): New variable.

Change-Id: Iff8181ec1c9341081c09afcaf4fbdc2d57b1ccec
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 15:12:12 +00:00
Vinicius Monego
9218186867 gnu: Add python-unicodeitplus. 
* gnu/packages/python-xyz.scm (python-unicodeitplus): New variable.

Change-Id: Ief9e0f558510b0df49c2cb51cb559694c7ca0c96
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 15:09:34 +00:00
Vinicius Monego
5e769f095f gnu: Add python-jacobi. 
* gnu/packages/python-science.scm (python-jacobi): New variable.

Change-Id: I1db0a588789c0cb6c79d298f97b71ee7958eab39
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 15:09:34 +00:00
Allan Adair
e7d2cb411b gnu: Add python-kubernetes. 
* gnu/packages/python-web.scm (python-kubernetes): New variable.

Change-Id: I64babb5633e93afc1fbe21e40e4b65df64fec413
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 14:23:45 +00:00
Nicolas Graves
40cd87d4c6 gnu: python-pystitcher: Update to 1.0.5-0.d8150be. 
* gnu/packages/python-xyz.scm (python-pystitcher): Update to
d8150be85d53335f7077491ab4d73fad772ef1c9 commit.
[arguments]<#:phases>: Add phase 'set-version.
[native-inputs]: Remove python-setuptools, python-wheel.  Add
python-hatchling, python-hatch-vcs.
[inputs]: Replace python-pypdf3 by python-pypdf.

Change-Id: I0e053fc2460fd425015a70d730fd96173665fc30
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 14:07:36 +00:00
Ayan Das
dcd44c5cf9 gnu: python-diff-cover: Update to 9.7.1. 
* gnu/packages/python-xyz.scm (python-diff-cover): Update to 9.7.1.
  (home-page): Use non-redirected 'diff_cover' URL.

Change-Id: I120ad2f2f4f6f21fff1b20c0137f4046dc0aadfd
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 13:59:54 +00:00
Cayetano Santos
594ca9ddd4 gnu: python-olm: Replace libolm by olm. 
libolm is deprecaded by olm.

* gnu/packages/crypto.scm (python-olm)[inherit]: Switch from libolm to
olm.
[inputs]: Remove libolm; add olm.

Change-Id: Ieb6360435218348027fedf4db735e49ed5aa0e68
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 13:44:40 +00:00
Cayetano Santos
7df0211932 gnu: python-jaxtyping: Update to 0.3.3. 
* gnu/packages/machine-learning.scm (python-jaxtyping): Update to 0.3.3.

Change-Id: I448742521e56cb4e8799f67b632f3939746e52ed
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 13:32:58 +00:00
Cayetano Santos
ffb8b9b5f7 gnu: Add python-wadler-lindig. 
* gnu/packages/python-xyz.scm (python-wadler-lindig): New variable.

Change-Id: Ia493938cf8983ee978a1a37c04dd7a90ee473f32
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 13:32:52 +00:00
Cayetano Santos
4760733922 gnu: fdroidserver: Update to 2.4.2. 
* gnu/packages/android.scm (fdroidserver): Update to 2.4.2.
[build-system]: Switch to pyproject-build-system.
[arguments]: Disable #:tests?.
<#:phases>: Remove fix-versioning; add set-env.
[propagated-inputs]: Remove python-ruamel.yaml; add python-argcomplete,
python-asn1crypto, python-oscrypto, python-platformdirs,
python-puremagic, python-ruamel.yaml-0.16, python-yamllint, and
sdkmanager.
[native-inputs]: Remove python-bcrypt, python-docker-pycreds,
python-pynacl, and python-websocket-client; add python-setuptools.

Fixes: guix/guix#3929
Change-Id: Idb302961009ea96667f713396e7d0922c1a98201
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 13:24:09 +00:00
Cayetano Santos
843af5ed32 gnu: Add python-oscrypto. 
* gnu/packages/python-crypto.scm (python-oscrypto): New variable.

Change-Id: I1395e3ef753291ad9fb0887b7e38460ab708d7fa
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 13:24:09 +00:00
Sharlatan Hellseher
be460d0ee3 gnu: python-androguard: Switch to pyproject. 
* gnu/packages/android.scm (python-androguard):
[build-system]: Switch to pyproject-build-system.
[arguments] <tests?>: Disable missing tests.
[native-inputs]: Remove python-codecov, python-coverage, python-mock,
python-nose, and python-nose-timer; add python-setuptools.

Change-Id: I0cb9b604bc17d272843244373561d74ae4e913e2
 2025-10-30 13:24:09 +00:00
Cayetano Santos
d782bd75f1 gnu: python-androguard: Update to 3.3.5. 
* gnu/packages/android.scm (python-androguard): Update to 3.3.5.
[propagated-inputs]: Add python-click and python-pydot.

Change-Id: I5bb7ec8566b3d27db1f8cbc1b7adb4d8201250d2
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 13:12:06 +00:00
Cayetano Santos
16b22c416e gnu: python-pytooling: Update to 8.7.6. 
* gnu/packages/python-xyz.scm (python-pytooling): Update to 8.7.6.
[native-inputs]: Remove python-wheel.

Change-Id: I371c4b3419c7076c0b35d3ce9f437959da912ecf
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 13:02:14 +00:00
Ghislain Vaillant
cb9e02e554 gnu: Add python-sshfs. 
* gnu/packages/python-xyz.scm (python-sshfs): New variable.

Change-Id: I22ea5d608f8b02d584dd2d8318d2142e898e629f
Modified-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 12:42:46 +00:00
Ghislain Vaillant
d2550caf8e gnu: Add python-mock-ssh-server. 
* gnu/packages/python-xyz.scm (python-mock-ssh-server): New variable.

Change-Id: Id5ab44d812fb6e0d8758961e81e4659e7c215823
Modified-by: Sharlatan Hellseher <sharlatanus@gmail.com>
Signed-off-by: Sharlatan Hellseher <sharlatanus@gmail.com>
 2025-10-30 12:41:56 +00:00
Sharlatan Hellseher
44772b3bc8 gnu: idr: Switch to pyproject. 
* gnu/packages/bioinformatics.scm (idr)[build-system]: Switch to
pyproject-build-system.
[native-inputs]: Add python-setuptools.

Change-Id: Ib6811a399b4c531f119bcef23b3216ff70c2d5eb
 2025-10-30 11:31:10 +00:00
Sharlatan Hellseher
64dac23e32 gnu: python-deeptoolsintervals: Switch to pyproject. 
* gnu/packages/bioinformatics.scm (python-deeptoolsintervals):
[build-system]: Switch to pyproject-build-system.
[native-inputs]: Add python-pytest and python-setuptools.

Change-Id: I2f95aa4f526f879d9407d7625834f389e384bc39
 2025-10-30 11:29:10 +00:00
Sharlatan Hellseher
6896332787 gnu: python-twobitreader: Update to 3.1.9. 
* gnu/packages/bioinformatics.scm (python-twobitreader): Update to 3.1.9.
[build-system]: Switch to pyproject-build-system.
[arguments] <tests?>: Enable.
[native-inputs]: Remove python-sphinx; add python-pytest and
python-setuptools.

Change-Id: I1c8d450611f1a3f3d271606bb744dd24c5f60d4d
 2025-10-30 11:16:21 +00:00
Sharlatan Hellseher
6b6a3c6cba gnu: bwa-meth: Update to 0.2.9. 
* gnu/packages/bioinformatics.scm (bwa-meth): Update to 0.2.9.
[build-system]: Switch to pyproject-build-system.
[arguments] <tests?>: No tests.
[inputs]: Add python-toolshed.
[native-inputs]: Remove python-toolshed; add python-setuptools.

Change-Id: Ib3544054943af904f4acea0a899f86ef66e7a47d
 2025-10-30 11:04:51 +00:00
Sharlatan Hellseher
075dc6ec28 gnu: python-fastalite: Update to 0.4.1. 
* gnu/packages/bioinformatics.scm (python-fastalite): Update to 0.4.1.
[source]: Switch to git-fetch providing test data.
[build-system]: Switch to pyproject-build-system.
[arguments] <tests?>: Enable.
<test-backend>: Use 'unittest.
<phases>: Add set-version.
[native-inputs]: Add python-setuptools.

Change-Id: Ie6659208edb37995303cf332e3b985a89d5e8d39
 2025-10-30 10:52:20 +00:00
Sharlatan Hellseher
b68eb98be0 gnu: python-cmseq: Fix build. 
* gnu/packages/bioinformatics.scm (python-bcbio-gff/biopython-1.73):
Rename variable to python-bcbio-gff-for-python-cmseq and pin to 0.6.9
version which is the last one compatible with python-biopython-1.73.
(python-cmseq)[propagated-inputs]: Remove
python-bcbio-gff/biopython-1.73; add python-bcbio-gff-for-python-cmseq.
[native-inputs]: Add python-setuptools.

Change-Id: Id7c37f8f34058648506645ce07c2a89dfcea2067
 2025-10-30 10:25:16 +00:00
Sharlatan Hellseher
898721e174 gnu: python-ega-download-client: Update to 5.2.1. 
* gnu/packages/bioinformatics.scm (python-ega-download-client): Update to 5.2.1.
[arguments]: Use G-Expressions.
<test-flags>: Rework skipped tests and ignored tests files
generating very larg test files (up to 150GiB) which may affect the CI
or user's machine.
[native-inputs]: Remove python-coverage and python-wheel; add
nss-certs-for-test.

Change-Id: Ic91c65e548e27d6c57396000233b6e5f5949554c
 2025-10-30 09:53:54 +00:00
Maxim Cournoyer
a4acb04cbd Revert "gnu: Add zstd-final." 
This reverts commit e945001f04.
 2025-10-30 16:20:05 +09:00
Maxim Cournoyer
84c92de611 Revert "gnu: %final-inputs: Use zstd-final." 
This reverts commit 75d24fbfef.
 2025-10-30 16:20:04 +09:00
Maxim Cournoyer
e983b65c8d Revert "gnu: Add pkg-config-final." 
This reverts commit 72a99ff1a7.
 2025-10-30 16:20:04 +09:00
Maxim Cournoyer
d93bb701a0 Revert "gnu: binutils-final: Enable zstd support." 
This reverts commit 0c1de511f8.
 2025-10-30 16:20:03 +09:00
Maxim Cournoyer
267c864822 Revert "gnu: binutils: Fix indentation." 
This reverts commit afe80d2a63.
 2025-10-30 16:20:03 +09:00
Maxim Cournoyer
b6323d3f1a Revert "gnu: binutils: Do not compress debug sections." 
This reverts commit 3410d8bdc8.
 2025-10-30 16:20:02 +09:00
Maxim Cournoyer
95b64bbaee Revert "gnu: binutils: Enable zstd compression." 
This reverts commit 16f0f497cd.
 2025-10-30 16:20:01 +09:00
Maxim Cournoyer
4801cb6f8f Revert "gnu: binutils-boot0: Refactor arguments." 
This reverts commit 6f229017f5.
 2025-10-30 16:20:01 +09:00
Maxim Cournoyer
63d395cf61 Revert "gnu: binutils: Use zstd compression level 19." 
This reverts commit 87a23070f2.
 2025-10-30 16:20:00 +09:00
Maxim Cournoyer
6cb1b4ec4c Revert "gnu: Add dwz." 
This reverts commit 88945309b2.
 2025-10-30 16:20:00 +09:00
Maxim Cournoyer
1842df46c1 Revert "gnu: Add elfutils-final." 
This reverts commit 7d5721de9a.
 2025-10-30 16:20:00 +09:00
Maxim Cournoyer
d1b94d1e70 Revert "gnu: Add xxhash-final." 
This reverts commit c97232c4d3.
 2025-10-30 16:19:59 +09:00
Maxim Cournoyer
29eb3783ae Revert "gnu: Add dwz-final." 
This reverts commit 4e2a5b27dd.
 2025-10-30 16:19:59 +09:00
Maxim Cournoyer
a49affc02b Revert "gnu %final-inputs: Add dwz-final." 
This reverts commit 86b4c975e9.
 2025-10-30 16:19:58 +09:00
Maxim Cournoyer
c0a4052c6a Revert "gnu: xz: Update to 5.8.1." 
This reverts commit 6dec2fbccb.
 2025-10-30 16:19:57 +09:00
Maxim Cournoyer
8d6ad7edc5 Revert "gnu: readline: Update to 8.3." 
This reverts commit 9cceaad44a.
 2025-10-30 16:19:57 +09:00
Maxim Cournoyer
775c3efadb Revert "gnu: bash: Update to 5.3." 
This reverts commit 1d73b616a9.
 2025-10-30 16:19:56 +09:00
Maxim Cournoyer
7bd0d6a038 Revert "gnu: ed: Update to 1.22.2." 
This reverts commit 7fc35b3465.
 2025-10-30 16:19:56 +09:00
Maxim Cournoyer
b4a2979cbc Revert "gnu: m4: Update to 1.4.20." 
This reverts commit 81fcd98bac.
 2025-10-30 16:19:55 +09:00
Maxim Cournoyer
6113501327 Revert "gnu: flex: Apply a patch fixing a non-deterministic build failure." 
This reverts commit 6faa102a04.
 2025-10-30 16:19:55 +09:00
Maxim Cournoyer
96818c1a7c Revert "gnu: flex: Move bison-for-tests input to native inputs." 
This reverts commit c334cf0bb9.
 2025-10-30 16:19:54 +09:00
Maxim Cournoyer
902127d92b Revert "gnu: libtool: Update to 2.5.4." 
This reverts commit da8179893f.
 2025-10-30 16:19:54 +09:00
Maxim Cournoyer
8593227f40 Revert "gnu: acl: Update to 2.3.2." 
This reverts commit 6c3e5f1665.
 2025-10-30 16:19:53 +09:00
Maxim Cournoyer
db74afaab8 Revert "gnu: gettext-minimal: Update to 0.26." 
This reverts commit e6f3c37fa2.
 2025-10-30 16:19:53 +09:00
Maxim Cournoyer
09b0ee0f24 Revert "gnu: help2man: Update to 1.49.3." 
This reverts commit 1fc884a374.
 2025-10-30 16:19:53 +09:00