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* dev-python/cadquery: add 2.2_rc20220506Vladimir Shapranov2022-06-222-0/+59
| | | | | | Signed-off-by: Vladimir Shapranov <equidamoid@gmail.com> Closes: https://github.com/gentoo/sci/pull/1152 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* dev-python/typish: new packageVladimir Shapranov2022-06-223-0/+43
| | | | | | | Required as a dependency of dev-python/cadquery, recently removed from the main tree. Signed-off-by: Vladimir Shapranov <equidamoid@gmail.com> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* dev-python/muiltimethod: new packageVladimir Shapranov2022-06-223-0/+33
| | | | | | | Required as a dependency of dev-python/cadquery. Signed-off-by: Vladimir Shapranov <equidamoid@gmail.com> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* dev-python/cadquery-{ocp,pywrap}: bump to opencascade-7.5.3Vladimir Shapranov2022-06-204-0/+260
| | | | | | | | Official releases are not available, using latest `master` as of today. Signed-off-by: Vladimir Shapranov <equidamoid@gmail.com> Closes: https://github.com/gentoo/sci/pull/1151 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* net-misc/cernbox-client: add 2.10.1.7389, drop 2.9.2.6206Andrew Ammerlaan2022-06-182-3/+2
| | | | | | Co-authored-by: Oliver Freyermuth <o.freyermuth@googlemail.com> Closes: https://patch-diff.githubusercontent.com/raw/gentoo/sci/pull/1150.diff Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* dev-python/fiona: bump 1.8.21Thomas Bettler2022-06-132-3/+8
| | | | | | Signed-off-by: Thomas Bettler <thomas.bettler@gmail.com> Closes: https://github.com/gentoo/sci/pull/1149 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* dev-python/rasterio: add missing test depAndrew Ammerlaan2022-06-131-0/+1
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* dev-python/rasterio: new rev for gdal>=3.5.0Thomas Bettler2022-06-131-2/+6
| | | | | | Signed-off-by: Thomas Bettler <thomas.bettler@gmail.com> Closes: https://github.com/gentoo/sci/pull/1148 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-libs/arpack: new package, add 3.8.0_p20220604Alessandro Barbieri2022-06-123-0/+131
| | | | | | Signed-off-by: Alessandro Barbieri <lssndrbarbieri@gmail.com> Closes: https://github.com/gentoo/sci/pull/1147 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* app-arch/libdeflate: add version 1.11Andrew Ammerlaan2022-06-124-3/+32
| | | | | Closes: https://bugs.gentoo.org/851192 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-libs/HDF5Plugin-Zstandard: avoid changing envYuyi Wang2022-06-091-7/+1
| | | | | | | | | | | | This patch syncs with gentoo/gentoo@8e16e74. As the default plugin directory is set to the right value, we don't need to specify the HDF5_PLUGIN_PATH environment variable. This will make our environment clear and less hacky. Closes: https://github.com/gentoo/sci/pull/1146 Signed-off-by: Yuyi Wang <Strawberry_Str@hotmail.com> Signed-off-by: Benda Xu <heroxbd@gentoo.org>
* dev-python/annexremote: pypi sourcesHorea Christian2022-05-274-16/+7
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/samri: dependency restrictionHorea Christian2022-05-181-1/+1
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* profiles/package.mask: mask jeuclid-core for removalAndrew Ammerlaan2022-05-151-0/+6
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/nilearn: linking upstream test failure report in commentHorea Christian2022-05-121-0/+2
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/nilearn: test file patchHorea Christian2022-05-111-0/+10
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-vcs/dandi-cli: PEP517 fix suggested by mgornyHorea Christian2022-05-044-1/+54
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* *.md: update documentation: repoman --> pkgcheck and friendsAndrew Ammerlaan2022-05-022-57/+27
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* */*: virtual/jpeg deprecationAndrew Ammerlaan2022-05-0221-21/+21
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-libs/superlu_dist: drop masked packageAndrew Ammerlaan2022-05-024-74/+0
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/fsl: drop dep on cuda-10Andrew Ammerlaan2022-05-022-8/+2
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* .github/workflows: only run on push/PRAndrew Ammerlaan2022-05-022-4/+0
| | | | | | | I suspect the cache corruption issue that occurred is due to running a on-push and on-schedule check simultaneously. Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* Drop repoman CI in favour of pkgcheckAndrew Ammerlaan2022-05-022-52/+0
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* .github/workflows/pkgcheck.yml: try re-enable pkgcheckAndrew Ammerlaan2022-05-021-0/+19
| | | | | | | | | | | | Revert "pkgcheck.yml: previous commit was not enough, just remove the file for now" This reverts commit 14ed9ff340aff882ce6ebb42f4b489f3e035aff3. Revert "pkgcheck.yml: disable for now" This reverts commit 6c8402543717d6c12860a6c5ca55ea127d29672f. Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* dev-python/zarr: add 2.11.3Andrew Ammerlaan2022-05-022-0/+58
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* dev-python/dandischema: dropped packageHorea Christian2022-05-028-223/+0
| | | | | | superseded by dev-python/dandi-schema Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-vcs/dandi-cli: version bumpHorea Christian2022-05-022-0/+87
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-vcs/dandi-cli: dependency updateHorea Christian2022-05-022-4/+2
| | | | | | | | | | | | DISTUTILS_USE_PEP517 removal hopefully soon revertable, cuurently fails with: ``` AttributeError: module 'versioneer' has no attribute 'get_version' ``` Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-vcs/dandi-cli: dropped old versionHorea Christian2022-05-024-118/+0
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-python/dandi-schema: new packageHorea Christian2022-05-028-0/+223
| | | | | | | will deprecate dev-python/dandischema Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-python/fscacher: upstream inplace source archive updateHorea Christian2022-05-021-1/+1
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/nilearn: version bump and working testsHorea Christian2022-04-282-0/+51
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-python/llvmlite: LLVM_MAX_SLOT bumpHorea Christian2022-04-254-3/+190
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/samri: renamed dependencyHorea Christian2022-04-251-1/+1
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/*: server updates for SRC_URIHorea Christian2022-04-257-9/+9
| | | | Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-python/nwbinspector: new package (DANDI stack)Horea Christian2022-04-213-0/+45
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/samri_bindata: source mirror unavailableHorea Christian2022-04-151-2/+1
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/samri_bidsdata: source mirror unavailableHorea Christian2022-04-151-2/+1
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/dargcc_bidsdata: source mirror unavailableHorea Christian2022-04-151-2/+1
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/drlfom_bidsdata: source mirror unavailableHorea Christian2022-04-151-2/+1
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/irsabi_bidsdata: source mirror unavailableHorea Christian2022-04-151-2/+1
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/opfvta_bidsdata: source mirror unavailableHorea Christian2022-04-151-2/+1
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-vcs/dandi-cli: new packageHorea Christian2022-04-059-0/+361
| | | | | | | Some etelemetry issues remain Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/afni: version patches are identicalHorea Christian2022-04-034-26/+2
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/afni: corrected patch applicationHorea Christian2022-04-031-7/+3
| | | | | | | | ebuild still fails, though, log included in comment and reposited here: https://ppb.chymera.eu/4223de.log Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/afni: bump ebuild still failsHorea Christian2022-04-011-1/+3
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/afni: add 22.0.21, drop 22.0.03Andrew Ammerlaan2022-04-013-7/+27
| | | | | | | | | | Restore patch dropping py2.7 dep TODO: make build system respect *FLAGS TODO: Switch to cmake? This is non-trivial because the cmake build system wants to fetch deps from the internet Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
* sci-biology/afni: cleaned up whitespace and unneeded codeHorea Christian2022-04-012-9/+5
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* sci-biology/afni: reinstated working versionsHorea Christian2022-04-016-1/+176
| | | | | Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>
* dev-python/pycryptodomex: dropped in favour of pycryptodome::gentooHorea Christian2022-03-315-159/+0
| | | | | | | Patch example can be seen in the dev-python/keyrings_alt package. Package-Manager: Portage-3.0.30, Repoman-3.0.3 Signed-off-by: Horea Christian <chr@chymera.eu>