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Add recipe for mrtrix3 #53168

Merged
merged 21 commits into from
Jan 15, 2025
Merged

Add recipe for mrtrix3 #53168

merged 21 commits into from
Jan 15, 2025

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martin-g
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Describe your pull request here


Please read the guidelines for Bioconda recipes before opening a pull request (PR).

General instructions

  • If this PR adds or updates a recipe, use "Add" or "Update" appropriately as the first word in its title.
  • New recipes not directly relevant to the biological sciences need to be submitted to the conda-forge channel instead of Bioconda.
  • PRs require reviews prior to being merged. Once your PR is passing tests and ready to be merged, please issue the @BiocondaBot please add label command.
  • Please post questions on Gitter or ping @bioconda/core in a comment.

Instructions for avoiding API, ABI, and CLI breakage issues

Conda is able to record and lock (a.k.a. pin) dependency versions used at build time of other recipes.
This way, one can avoid that expectations of a downstream recipe with regards to API, ABI, or CLI are violated by later changes in the recipe.
If not already present in the meta.yaml, make sure to specify run_exports (see here for the rationale and comprehensive explanation).
Add a run_exports section like this:

build:
  run_exports:
    - ...

with ... being one of:

Case run_exports statement
semantic versioning {{ pin_subpackage("myrecipe", max_pin="x") }}
semantic versioning (0.x.x) {{ pin_subpackage("myrecipe", max_pin="x.x") }}
known breakage in minor versions {{ pin_subpackage("myrecipe", max_pin="x.x") }} (in such a case, please add a note that shortly mentions your evidence for that)
known breakage in patch versions {{ pin_subpackage("myrecipe", max_pin="x.x.x") }} (in such a case, please add a note that shortly mentions your evidence for that)
calendar versioning {{ pin_subpackage("myrecipe", max_pin=None) }}

while replacing "myrecipe" with either name if a name|lower variable is defined in your recipe or with the lowercase name of the package in quotes.

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Please use the following BiocondaBot commands:

Everyone has access to the following BiocondaBot commands, which can be given in a comment:

@BiocondaBot please update Merge the master branch into a PR.
@BiocondaBot please add label Add the please review & merge label.
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You can use this to test packages locally.

Note that the @BiocondaBot please merge command is now depreciated. Please just squash and merge instead.

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@martin-g martin-g added aarch64 Related to adding linux-aarch64 support osx-arm64 Related to adding osx-arm64 support labels Jan 10, 2025
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
recipes/mrtrix3/meta.yaml Outdated Show resolved Hide resolved
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
@martin-g martin-g force-pushed the mrtrix3 branch 2 times, most recently from 71a2df6 to d020a88 Compare January 10, 2025 13:16
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
```
13:50:54 BIOCONDA INFO (OUT) $BUILD_PREFIX/bin/../lib/gcc/x86_64-conda-linux-gnu/13.3.0/../../../../x86_64-conda-linux-gnu/bin/ld: warning: libxcb.so.1, needed by $BUILD_PREFIX/bin/../x86_64-conda-linux-gnu/sysroot/usr/lib/../lib/../lib/libX11.so.6, not found (try using -rpath or -rpath-link)
```

Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
@martin-g
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@BiocondaBot please fetch artifacts

@BiocondaBot
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Package(s) built are ready for inspection:

Arch Package Zip File / Repodata CI Instructions
linux-64 mrtrix3-3.0.4-ha1f1e50_0.tar.bz2 linux-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
linux-aarch64 mrtrix3-3.0.4-hc97f590_0.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/219ff67a-48e9-4d75-b1f4-0cbc1599a360/artifacts/0/tmp/artifacts/packages <package name>

Docker image(s) built:

Package Tag CI Install with docker
mrtrix3 3.0.4--ha1f1e50_0 GitHub Actions
showImages are in the linux-64 zip file above.gzip -dc images/mrtrix3---3.0.4--ha1f1e50_0.tar.gz | docker load

Add a test command

Signed-off-by: Martin Tzvetanov Grigorov <[email protected]>
@martin-g martin-g marked this pull request as ready for review January 15, 2025 09:46
@martin-g
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@BiocondaBot please fetch artifacts

@BiocondaBot
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Package(s) built are ready for inspection:

Arch Package Zip File / Repodata CI Instructions
linux-64 mrtrix3-3.0.4-ha1f1e50_0.tar.bz2 linux-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
linux-aarch64 mrtrix3-3.0.4-hc97f590_0.tar.bz2 repodata.json CircleCI
showYou may also use conda to install:conda install -c https://output.circle-artifacts.com/output/job/9846e6ca-ba56-406a-bdb8-2fd896dbb670/artifacts/0/tmp/artifacts/packages <package name>

Docker image(s) built:

Package Tag CI Install with docker
mrtrix3 3.0.4--ha1f1e50_0 GitHub Actions
showImages are in the linux-64 zip file above.gzip -dc images/mrtrix3---3.0.4--ha1f1e50_0.tar.gz | docker load

@martin-g
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@BiocondaBot please add label

@BiocondaBot BiocondaBot added the please review & merge set to ask for merge label Jan 15, 2025
@mencian mencian merged commit ba4539e into bioconda:master Jan 15, 2025
5 checks passed
@martin-g martin-g deleted the mrtrix3 branch January 16, 2025 07:06
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3 participants