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Author SHA1 Message Date
dependabot[bot]
2f394ba896
deps(python): bump snakemake in /dependencies/python (#5703) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.11.6 to 8.12.0.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.11.6...v8.12.0)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-minor
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 2024-06-03 14:04:17 +00:00
dependabot[bot]
457e0f58c9
deps(python): bump snakemake in /dependencies/python (#5670) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.11.4 to 8.11.6.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.11.4...v8.11.6)

---
updated-dependencies:
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  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2024-05-21 08:07:44 +00:00
dependabot[bot]
a08197ea80
deps(python): bump snakemake in /dependencies/python (#5635) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.11.0 to 8.11.4.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.11.0...v8.11.4)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2024-05-13 13:36:58 +00:00
dependabot[bot]
5c3f218ac3
deps(python): bump snakemake in /dependencies/python (#5584) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.10.8 to 8.11.0.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.10.8...v8.11.0)

---
updated-dependencies:
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  dependency-type: direct:production
  update-type: version-update:semver-minor
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 2024-05-02 11:46:14 +00:00
dependabot[bot]
02a63e98cf
deps(python): bump snakemake in /dependencies/python (#5558) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.10.7 to 8.10.8.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.10.7...v8.10.8)

---
updated-dependencies:
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  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2024-04-23 14:01:13 +00:00
dependabot[bot]
fdd042766f
deps(python): bump snakemake in /dependencies/python (#5523) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.10.6 to 8.10.7.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.10.6...v8.10.7)

---
updated-dependencies:
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  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2024-04-17 13:34:40 +00:00
dependabot[bot]
794408dfa4
deps(python): bump snakemake in /dependencies/python (#5496) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.10.4 to 8.10.6.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.10.4...v8.10.6)

---
updated-dependencies:
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  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2024-04-09 07:29:53 +00:00
dependabot[bot]
d86761cc6a
deps(python): bump snakemake in /dependencies/python (#5459) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.9.0 to 8.10.4.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.9.0...v8.10.4)

---
updated-dependencies:
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  update-type: version-update:semver-minor
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 2024-04-04 11:40:03 +00:00
dependabot[bot]
3ec9980fe4
deps(python): bump snakemake from 8.5.3 to 8.9.0 in /dependencies/python (#5425) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.5.3 to 8.9.0.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.5.3...v8.9.0)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-minor
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 2024-03-22 12:54:47 +00:00
dependabot[bot]
b1dbf250f4
deps(python): bump snakemake from 8.4.9 to 8.5.3 in /dependencies/python (#5328) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.4.9 to 8.5.3.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.4.9...v8.5.3)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-minor
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 2024-02-27 18:21:29 +00:00
dependabot[bot]
2b9f7f4fe0
deps(python): bump snakemake from 8.4.8 to 8.4.9 in /dependencies/python (#5302) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.4.8 to 8.4.9.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.4.8...v8.4.9)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2024-02-19 20:38:27 +00:00
dependabot[bot]
fbd27feb88
deps(python): bump snakemake from 8.4.3 to 8.4.8 in /dependencies/python (#5261) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.4.3 to 8.4.8.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.4.3...v8.4.8)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2024-02-12 18:49:20 +00:00
dependabot[bot]
b0183dce18
deps(python): bump snakemake from 8.4.1 to 8.4.3 in /dependencies/python (#5237) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.4.1 to 8.4.3.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.4.1...v8.4.3)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2024-02-05 17:26:23 +00:00
dependabot[bot]
94d28767db
deps(python): bump snakemake from 8.4.0 to 8.4.1 in /dependencies/python (#5200) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.4.0 to 8.4.1.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.4.0...v8.4.1)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2024-01-30 12:57:55 +00:00
dependabot[bot]
1079b8ac6c
deps(python): bump snakemake from 8.2.3 to 8.4.0 in /dependencies/python (#5185) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.2.3 to 8.4.0.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.2.3...v8.4.0)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-minor
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 2024-01-29 20:46:20 +00:00
dependabot[bot]
5fb1953e55
deps(python): bump snakemake from 8.1.3 to 8.2.3 in /dependencies/python (#5158) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.1.3 to 8.2.3.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.1.3...v8.2.3)

---
updated-dependencies:
- dependency-name: snakemake
  dependency-type: direct:production
  update-type: version-update:semver-minor
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 2024-01-23 10:01:16 +00:00
dependabot[bot]
83916eae6d
deps(python): bump snakemake from 8.1.0 to 8.1.3 in /dependencies/python (#5145) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.1.0 to 8.1.3.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.1.0...v8.1.3)

---
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- dependency-name: snakemake
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  update-type: version-update:semver-patch
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 2024-01-15 13:46:26 +00:00
dependabot[bot]
e42ee7868d
deps(python): bump snakemake from 8.0.1 to 8.1.0 in /dependencies/python (#5115) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 8.0.1 to 8.1.0.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v8.0.1...v8.1.0)

---
updated-dependencies:
- dependency-name: snakemake
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 2024-01-09 10:23:52 +00:00
dependabot[bot]
dffec934fc
deps(python): bump snakemake in /dependencies/python (#5057) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 7.32.4 to 8.0.1.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v7.32.4...v8.0.1)

---
updated-dependencies:
- dependency-name: snakemake
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  update-type: version-update:semver-major
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 2023-12-24 14:14:57 +00:00
dependabot[bot]
3ecc0801ea
Bump snakemake from 7.30.1 to 7.32.4 in /dependencies/python (#4815) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 7.30.1 to 7.32.4.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v7.30.1...v7.32.4)

---
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- dependency-name: snakemake
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 2023-10-31 20:55:34 +00:00
Marco Ferrari
9ee2eed763
Simplify pip requirements files (#4796) 2023-10-27 23:07:51 +00:00
dependabot[bot]
44c739fe15
Bump docutils from 0.19 to 0.20.1 in /dependencies/python (#4785) 
Bumps [docutils](https://docutils.sourceforge.io/) from 0.19 to 0.20.1.

---
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 2023-10-24 23:50:46 +00:00
dependabot[bot]
397b14da44
Bump jupyter-core from 5.3.0 to 5.3.1 in /dependencies/python (#4658) 
Bumps [jupyter-core](https://github.com/jupyter/jupyter_core) from 5.3.0 to 5.3.1.
- [Release notes](https://github.com/jupyter/jupyter_core/releases)
- [Changelog](https://github.com/jupyter/jupyter_core/blob/main/CHANGELOG.md)
- [Commits](https://github.com/jupyter/jupyter_core/compare/v5.3.0...v5.3.1)

---
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- dependency-name: jupyter-core
  dependency-type: direct:production
  update-type: version-update:semver-patch
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 2023-09-21 06:56:59 +00:00
dependabot[bot]
4eadc5800b
Bump configargparse from 1.5.3 to 1.7 in /dependencies/python (#4659) 
Bumps [configargparse](https://github.com/bw2/ConfigArgParse) from 1.5.3 to 1.7.
- [Release notes](https://github.com/bw2/ConfigArgParse/releases)
- [Commits](https://github.com/bw2/ConfigArgParse/compare/v1.5.3...1.7)

---
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 2023-09-18 19:04:00 +00:00
dependabot[bot]
a6cc955aed
Bump charset-normalizer from 3.1.0 to 3.2.0 in /dependencies/python (#4583) 
Bumps [charset-normalizer](https://github.com/Ousret/charset_normalizer) from 3.1.0 to 3.2.0.
- [Release notes](https://github.com/Ousret/charset_normalizer/releases)
- [Changelog](https://github.com/Ousret/charset_normalizer/blob/master/CHANGELOG.md)
- [Commits](https://github.com/Ousret/charset_normalizer/compare/3.1.0...3.2.0)

---
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- dependency-name: charset-normalizer
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 2023-08-22 15:37:03 +00:00
dependabot[bot]
24891bf279
Bump fastjsonschema from 2.16.3 to 2.18.0 in /dependencies/python (#4509) 
Bumps [fastjsonschema](https://github.com/horejsek/python-fastjsonschema) from 2.16.3 to 2.18.0.
- [Changelog](https://github.com/horejsek/python-fastjsonschema/blob/master/CHANGELOG.txt)
- [Commits](https://github.com/horejsek/python-fastjsonschema/compare/v2.16.3...v2.18.0)

---
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 2023-08-17 15:03:13 +00:00
dependabot[bot]
38acc98590
Bump jsonschema from 4.17.3 to 4.19.0 in /dependencies/python (#4530) 
Bumps [jsonschema](https://github.com/python-jsonschema/jsonschema) from 4.17.3 to 4.19.0.
- [Release notes](https://github.com/python-jsonschema/jsonschema/releases)
- [Changelog](https://github.com/python-jsonschema/jsonschema/blob/main/CHANGELOG.rst)
- [Commits](https://github.com/python-jsonschema/jsonschema/compare/v4.17.3...v4.19.0)

---
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 2023-08-16 18:07:51 +00:00
dependabot[bot]
287003a823
Bump dpath from 2.1.5 to 2.1.6 in /dependencies/python (#4336) 
Bumps [dpath](https://github.com/dpath-maintainers/dpath-python) from 2.1.5 to 2.1.6.
- [Release notes](https://github.com/dpath-maintainers/dpath-python/releases)
- [Commits](https://github.com/dpath-maintainers/dpath-python/compare/v2.1.5...v2.1.6)

---
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 2023-08-10 22:20:01 +00:00
dependabot[bot]
1d0a3be314
Bump requests from 2.28.2 to 2.31.0 in /dependencies/python (#4343) 2023-07-23 08:48:14 -07:00
Philip Mallegol-Hansen
ddb1589d62
Bumps PyYAML to 6.0.1 (#4497) 
There's some conflict where PyYAML 6.0.0 and Cython 3.0 do not play well together, this version fixes that.
 2023-07-21 15:04:44 -07:00
dependabot[bot]
d428480827
Bump snakemake from 7.28.3 to 7.30.1 in /dependencies/python (#4411) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 7.28.3 to 7.30.1.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v7.28.3...v7.30.1)

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 2023-06-30 00:30:42 +00:00
dependabot[bot]
089c732c47
Bump snakemake from 7.25.0 to 7.28.3 in /dependencies/python (#4390) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 7.25.0 to 7.28.3.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v7.25.0...v7.28.3)

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 2023-06-19 08:24:30 -07:00
dependabot[bot]
db30455cd7
Bump psutil from 5.9.4 to 5.9.5 in /dependencies/python (#4128) 
* Bump psutil from 5.9.4 to 5.9.5 in /dependencies/python

Bumps [psutil](https://github.com/giampaolo/psutil) from 5.9.4 to 5.9.5.
- [Release notes](https://github.com/giampaolo/psutil/releases)
- [Changelog](https://github.com/giampaolo/psutil/blob/master/HISTORY.rst)
- [Commits](https://github.com/giampaolo/psutil/compare/release-5.9.4...release-5.9.5)

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* Update dependencies/python/snakemake.txt

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 2023-05-25 15:33:01 -07:00
dependabot[bot]
8a89630159
Bump platformdirs from 3.2.0 to 3.5.1 in /dependencies/python (#4200) 
Bumps [platformdirs](https://github.com/platformdirs/platformdirs) from 3.2.0 to 3.5.1.
- [Release notes](https://github.com/platformdirs/platformdirs/releases)
- [Changelog](https://github.com/platformdirs/platformdirs/blob/main/CHANGES.rst)
- [Commits](https://github.com/platformdirs/platformdirs/compare/3.2.0...3.5.1)

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 2023-05-23 12:39:48 -07:00
Super-Linter Automation
024514974a Update Python dependencies 2023-04-16 22:23:13 -04:00
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21a606688b Update Python dependencies 2023-04-10 14:51:50 -04:00
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67f15bf54c Update Python dependencies 2023-01-22 18:53:51 -05:00
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fd53b78588 Update Python dependencies 2023-01-16 20:07:10 -05:00
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42f676bd3e Update Python dependencies 2023-01-09 09:40:39 -05:00
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70bb091689 Update Python dependencies 2023-01-03 11:31:26 -05:00
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5451094101 Update Python dependencies 2022-12-26 09:36:28 -05:00
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f5f9a755e7 Update Python dependencies 2022-12-20 11:01:54 -05:00
dependabot[bot]
8ddf7760f8
Bump nbformat from 5.6.1 to 5.7.0 in /dependencies/python (#3444) 
Bumps [nbformat]() from 5.6.1 to 5.7.0.

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 2022-10-10 13:31:30 -05:00
github-actions[bot]
4e5b33defa
Update Python dependencies (#3425) 
Co-authored-by: Super-Linter Automation <noreply@github.com>
 2022-10-10 12:35:54 -05:00
Super-Linter Automation
71fe17b02c Update Python dependencies 2022-10-02 21:41:42 -05:00
dependabot[bot]
f79c9e933c
Bump nbformat from 5.6.0 to 5.6.1 in /dependencies/python (#3354) 
Bumps [nbformat]() from 5.6.0 to 5.6.1.

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 2022-09-27 09:24:19 +00:00
dependabot[bot]
abc2f61dd4
Bump snakemake from 7.14.0 to 7.14.1 in /dependencies/python (#3355) 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 7.14.0 to 7.14.1.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Changelog](https://github.com/snakemake/snakemake/blob/main/CHANGELOG.md)
- [Commits](https://github.com/snakemake/snakemake/compare/v7.14.0...v7.14.1)

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  update-type: version-update:semver-patch
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 2022-09-27 08:37:15 +00:00
github-actions[bot]
4afd71e176
Update Python dependencies (#3348) 
Co-authored-by: Super-Linter Automation <noreply@github.com>
Co-authored-by: Marco Ferrari <ferrari.marco@gmail.com>
 2022-09-26 13:48:52 -05:00
github-actions[bot]
f5193dd525
Update Python dependencies (#3229) 
Co-authored-by: Super-Linter Automation <noreply@github.com>
 2022-08-15 09:12:35 -05:00
github-actions[bot]
2b0d830b1f
Update Python dependencies (#3185) 
Co-authored-by: Super-Linter Automation <noreply@github.com>
 2022-08-01 13:16:46 -05:00