From 0340111b1fda57aa188706a5f013d126a80c043a Mon Sep 17 00:00:00 2001 From: Helge Hecht Date: Mon, 18 Nov 2024 17:30:59 +0100 Subject: [PATCH 1/7] added mzpaf recipe --- recipes/mzpaf/meta.yaml | 40 ++++++++++++++++++++++++++++++++++++++++ 1 file changed, 40 insertions(+) create mode 100644 recipes/mzpaf/meta.yaml diff --git a/recipes/mzpaf/meta.yaml b/recipes/mzpaf/meta.yaml new file mode 100644 index 0000000000000..c1646a20cd00c --- /dev/null +++ b/recipes/mzpaf/meta.yaml @@ -0,0 +1,40 @@ +{% set name = "mzpaf" %} +{% set version = "0.2.0a0" %} + +package: + name: {{ name|lower }} + version: {{ version }} + +source: + url: https://pypi.io/packages/source/{{ name[0] }}/{{ name }}/mzpaf-{{ version }}.tar.gz + sha256: dbabb1fe8234a5587b451407c44a3c6bb60e1cfbec48978952708b231b45f6d5 + +build: + noarch: python + script: {{ PYTHON }} -m pip install . -vv --no-deps --no-build-isolation + number: 0 + +requirements: + host: + - python + - pip + run: + - python + - pyteomics + +test: + imports: + - mzpaf + commands: + - pip check + requires: + - pip + +about: + summary: HUPO-PSI Peptide peak annotation format + license: CC-BY-1.0 + license_file: LICENSE + +extra: + recipe-maintainers: + - hechth From cf9965bbb43ed260f4e1d723d1418f73b446c2bb Mon Sep 17 00:00:00 2001 From: Helge Hecht Date: Mon, 18 Nov 2024 17:31:57 +0100 Subject: [PATCH 2/7] added run_exports --- recipes/mzpaf/meta.yaml | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/recipes/mzpaf/meta.yaml b/recipes/mzpaf/meta.yaml index c1646a20cd00c..689fefde68244 100644 --- a/recipes/mzpaf/meta.yaml +++ b/recipes/mzpaf/meta.yaml @@ -13,7 +13,9 @@ build: noarch: python script: {{ PYTHON }} -m pip install . -vv --no-deps --no-build-isolation number: 0 - + run_exports: + - {{ pin_subpackage('mzpaf', max_pin="x.x") }} + requirements: host: - python From 716c6de75250d7c4764c74c6f6c855d52b1dd697 Mon Sep 17 00:00:00 2001 From: Helge Hecht Date: Mon, 18 Nov 2024 17:35:42 +0100 Subject: [PATCH 3/7] fixed max pin --- recipes/mzpaf/meta.yaml | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/recipes/mzpaf/meta.yaml b/recipes/mzpaf/meta.yaml index 689fefde68244..4a8949af07f03 100644 --- a/recipes/mzpaf/meta.yaml +++ b/recipes/mzpaf/meta.yaml @@ -14,8 +14,8 @@ build: script: {{ PYTHON }} -m pip install . -vv --no-deps --no-build-isolation number: 0 run_exports: - - {{ pin_subpackage('mzpaf', max_pin="x.x") }} - + - {{ pin_subpackage('mzpaf', max_pin="x") }} + requirements: host: - python From faf23bd23d64363d170c72412023c0ccd0c83c8b Mon Sep 17 00:00:00 2001 From: Helge Hecht Date: Mon, 18 Nov 2024 17:47:55 +0100 Subject: [PATCH 4/7] added recipe metadata --- recipes/mzpaf/meta.yaml | 4 ++++ 1 file changed, 4 insertions(+) diff --git a/recipes/mzpaf/meta.yaml b/recipes/mzpaf/meta.yaml index 4a8949af07f03..a9af7c4e44c90 100644 --- a/recipes/mzpaf/meta.yaml +++ b/recipes/mzpaf/meta.yaml @@ -33,9 +33,13 @@ test: - pip about: + home: https://github.com/HUPO-PSI/mzPAF summary: HUPO-PSI Peptide peak annotation format license: CC-BY-1.0 + license_family: CC license_file: LICENSE + dev_url: https://github.com/HUPO-PSI/mzPAF/implementations/python + doc_url: https://mzpaf.readthedocs.io/en/latest/ extra: recipe-maintainers: From 35f7d3af3311f315dbbd7131409882c080e3e3f3 Mon Sep 17 00:00:00 2001 From: Helge Hecht Date: Mon, 18 Nov 2024 17:52:11 +0100 Subject: [PATCH 5/7] added further test following coderabbit's advice --- recipes/mzpaf/meta.yaml | 1 + 1 file changed, 1 insertion(+) diff --git a/recipes/mzpaf/meta.yaml b/recipes/mzpaf/meta.yaml index a9af7c4e44c90..65864306a2c57 100644 --- a/recipes/mzpaf/meta.yaml +++ b/recipes/mzpaf/meta.yaml @@ -29,6 +29,7 @@ test: - mzpaf commands: - pip check + - python -c "import mzpaf; assert hasattr(mzpaf, '__version__')" requires: - pip From e79ac4a5a4ee78e3c40f0375b1085dff781aac66 Mon Sep 17 00:00:00 2001 From: Helge Hecht Date: Tue, 19 Nov 2024 09:05:07 +0100 Subject: [PATCH 6/7] added license file --- recipes/mzpaf/LICENSE | 121 ++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 121 insertions(+) create mode 100644 recipes/mzpaf/LICENSE diff --git a/recipes/mzpaf/LICENSE b/recipes/mzpaf/LICENSE new file mode 100644 index 0000000000000..0e259d42c9967 --- /dev/null +++ b/recipes/mzpaf/LICENSE @@ -0,0 +1,121 @@ +Creative Commons Legal Code + +CC0 1.0 Universal + + CREATIVE COMMONS CORPORATION IS NOT A LAW FIRM AND DOES NOT PROVIDE + LEGAL SERVICES. DISTRIBUTION OF THIS DOCUMENT DOES NOT CREATE AN + ATTORNEY-CLIENT RELATIONSHIP. CREATIVE COMMONS PROVIDES THIS + INFORMATION ON AN "AS-IS" BASIS. CREATIVE COMMONS MAKES NO WARRANTIES + REGARDING THE USE OF THIS DOCUMENT OR THE INFORMATION OR WORKS + PROVIDED HEREUNDER, AND DISCLAIMS LIABILITY FOR DAMAGES RESULTING FROM + THE USE OF THIS DOCUMENT OR THE INFORMATION OR WORKS PROVIDED + HEREUNDER. + +Statement of Purpose + +The laws of most jurisdictions throughout the world automatically confer +exclusive Copyright and Related Rights (defined below) upon the creator +and subsequent owner(s) (each and all, an "owner") of an original work of +authorship and/or a database (each, a "Work"). + +Certain owners wish to permanently relinquish those rights to a Work for +the purpose of contributing to a commons of creative, cultural and +scientific works ("Commons") that the public can reliably and without fear +of later claims of infringement build upon, modify, incorporate in other +works, reuse and redistribute as freely as possible in any form whatsoever +and for any purposes, including without limitation commercial purposes. +These owners may contribute to the Commons to promote the ideal of a free +culture and the further production of creative, cultural and scientific +works, or to gain reputation or greater distribution for their Work in +part through the use and efforts of others. + +For these and/or other purposes and motivations, and without any +expectation of additional consideration or compensation, the person +associating CC0 with a Work (the "Affirmer"), to the extent that he or she +is an owner of Copyright and Related Rights in the Work, voluntarily +elects to apply CC0 to the Work and publicly distribute the Work under its +terms, with knowledge of his or her Copyright and Related Rights in the +Work and the meaning and intended legal effect of CC0 on those rights. + +1. Copyright and Related Rights. A Work made available under CC0 may be +protected by copyright and related or neighboring rights ("Copyright and +Related Rights"). Copyright and Related Rights include, but are not +limited to, the following: + + i. the right to reproduce, adapt, distribute, perform, display, + communicate, and translate a Work; + ii. moral rights retained by the original author(s) and/or performer(s); +iii. publicity and privacy rights pertaining to a person's image or + likeness depicted in a Work; + iv. rights protecting against unfair competition in regards to a Work, + subject to the limitations in paragraph 4(a), below; + v. rights protecting the extraction, dissemination, use and reuse of data + in a Work; + vi. database rights (such as those arising under Directive 96/9/EC of the + European Parliament and of the Council of 11 March 1996 on the legal + protection of databases, and under any national implementation + thereof, including any amended or successor version of such + directive); and +vii. other similar, equivalent or corresponding rights throughout the + world based on applicable law or treaty, and any national + implementations thereof. + +2. Waiver. To the greatest extent permitted by, but not in contravention +of, applicable law, Affirmer hereby overtly, fully, permanently, +irrevocably and unconditionally waives, abandons, and surrenders all of +Affirmer's Copyright and Related Rights and associated claims and causes +of action, whether now known or unknown (including existing as well as +future claims and causes of action), in the Work (i) in all territories +worldwide, (ii) for the maximum duration provided by applicable law or +treaty (including future time extensions), (iii) in any current or future +medium and for any number of copies, and (iv) for any purpose whatsoever, +including without limitation commercial, advertising or promotional +purposes (the "Waiver"). Affirmer makes the Waiver for the benefit of each +member of the public at large and to the detriment of Affirmer's heirs and +successors, fully intending that such Waiver shall not be subject to +revocation, rescission, cancellation, termination, or any other legal or +equitable action to disrupt the quiet enjoyment of the Work by the public +as contemplated by Affirmer's express Statement of Purpose. + +3. Public License Fallback. Should any part of the Waiver for any reason +be judged legally invalid or ineffective under applicable law, then the +Waiver shall be preserved to the maximum extent permitted taking into +account Affirmer's express Statement of Purpose. In addition, to the +extent the Waiver is so judged Affirmer hereby grants to each affected +person a royalty-free, non transferable, non sublicensable, non exclusive, +irrevocable and unconditional license to exercise Affirmer's Copyright and +Related Rights in the Work (i) in all territories worldwide, (ii) for the +maximum duration provided by applicable law or treaty (including future +time extensions), (iii) in any current or future medium and for any number +of copies, and (iv) for any purpose whatsoever, including without +limitation commercial, advertising or promotional purposes (the +"License"). The License shall be deemed effective as of the date CC0 was +applied by Affirmer to the Work. Should any part of the License for any +reason be judged legally invalid or ineffective under applicable law, such +partial invalidity or ineffectiveness shall not invalidate the remainder +of the License, and in such case Affirmer hereby affirms that he or she +will not (i) exercise any of his or her remaining Copyright and Related +Rights in the Work or (ii) assert any associated claims and causes of +action with respect to the Work, in either case contrary to Affirmer's +express Statement of Purpose. + +4. Limitations and Disclaimers. + + a. No trademark or patent rights held by Affirmer are waived, abandoned, + surrendered, licensed or otherwise affected by this document. + b. Affirmer offers the Work as-is and makes no representations or + warranties of any kind concerning the Work, express, implied, + statutory or otherwise, including without limitation warranties of + title, merchantability, fitness for a particular purpose, non + infringement, or the absence of latent or other defects, accuracy, or + the present or absence of errors, whether or not discoverable, all to + the greatest extent permissible under applicable law. + c. Affirmer disclaims responsibility for clearing rights of other persons + that may apply to the Work or any use thereof, including without + limitation any person's Copyright and Related Rights in the Work. + Further, Affirmer disclaims responsibility for obtaining any necessary + consents, permissions or other rights required for any use of the + Work. + d. Affirmer understands and acknowledges that Creative Commons is not a + party to this document and has no duty or obligation with respect to + this CC0 or use of the Work. From 601e2ae07fff565be30014e908d8384eb8a6c8c0 Mon Sep 17 00:00:00 2001 From: Helge Hecht Date: Tue, 19 Nov 2024 09:17:53 +0100 Subject: [PATCH 7/7] removed version check --- recipes/mzpaf/meta.yaml | 1 - 1 file changed, 1 deletion(-) diff --git a/recipes/mzpaf/meta.yaml b/recipes/mzpaf/meta.yaml index 65864306a2c57..a9af7c4e44c90 100644 --- a/recipes/mzpaf/meta.yaml +++ b/recipes/mzpaf/meta.yaml @@ -29,7 +29,6 @@ test: - mzpaf commands: - pip check - - python -c "import mzpaf; assert hasattr(mzpaf, '__version__')" requires: - pip