timtroendle/cookiecutter-reproducible-research issues and pull requests

#37 - Update Snakemake from 7.32 to 8.10.7

Pull Request - State: closed - Opened by timtroendle 5 months ago

#36 - Move to ruff

Issue - State: closed - Opened by timtroendle 5 months ago
Labels: enhancement

#35 - Ensure that conda envs do not include default packages

Issue - State: closed - Opened by timtroendle 7 months ago - 1 comment
Labels: enhancement

#34 - Add affiliations to documents

Issue - State: open - Opened by timtroendle 7 months ago - 1 comment
Labels: enhancement

#34 - Add affiliations to documents

Issue - State: open - Opened by timtroendle 7 months ago - 1 comment
Labels: enhancement

#33 - Add epub output

Issue - State: open - Opened by timtroendle 7 months ago
Labels: enhancement

#33 - Add epub output

Issue - State: open - Opened by timtroendle 7 months ago
Labels: enhancement

#32 - Update to released pytest-html version

Issue - State: closed - Opened by timtroendle 10 months ago
Labels: enhancement

#32 - Update to released pytest-html version

Issue - State: closed - Opened by timtroendle 10 months ago
Labels: enhancement

#31 - Improve test infrastructure

Issue - State: closed - Opened by timtroendle 11 months ago - 1 comment
Labels: enhancement

#31 - Improve test infrastructure

Issue - State: closed - Opened by timtroendle 11 months ago - 1 comment
Labels: enhancement

#30 - Add ==highlighting== option for reports

Issue - State: closed - Opened by timtroendle about 1 year ago
Labels: enhancement

#29 - Add Snakemake workflow profile as override of local profile

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#28 - pytest-pythonpath is obsolete as of pytest 7

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#28 - pytest-pythonpath is obsolete as of pytest 7

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#27 - Simplify DAG creation

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#26 - Make demo case optional

Issue - State: open - Opened by timtroendle over 1 year ago
Labels: enhancement

#26 - Make demo case optional

Issue - State: open - Opened by timtroendle over 1 year ago
Labels: enhancement

#25 - Update from pandoc-xnos to pandoc-crossref

Pull Request - State: closed - Opened by timtroendle over 1 year ago

#25 - Update from pandoc-xnos to pandoc-crossref

Pull Request - State: closed - Opened by timtroendle over 1 year ago

#24 - Rename `tags` to `keywords`

Issue - State: closed - Opened by timtroendle over 1 year ago - 1 comment
Labels: enhancement

#24 - Rename `tags` to `keywords`

Issue - State: closed - Opened by timtroendle over 1 year ago - 1 comment
Labels: enhancement

#23 - Conflict between pandoc-tablenos and pantable

Issue - State: closed - Opened by timtroendle over 1 year ago - 1 comment
Labels: bug

#23 - Conflict between pandoc-tablenos and pantable

Issue - State: closed - Opened by timtroendle over 1 year ago - 1 comment
Labels: bug

#22 - Add math to PDF

Issue - State: open - Opened by timtroendle over 1 year ago
Labels: enhancement

#22 - Add math to PDF

Issue - State: open - Opened by timtroendle over 1 year ago
Labels: enhancement

#21 - Add conda-prefix to configuration

Pull Request - State: closed - Opened by timtroendle over 1 year ago

#21 - Add conda-prefix to configuration

Pull Request - State: closed - Opened by timtroendle over 1 year ago

#20 - Add test of DAG rule

Issue - State: closed - Opened by timtroendle over 1 year ago - 1 comment
Labels: enhancement, invalid

#20 - Add test of DAG rule

Issue - State: closed - Opened by timtroendle over 1 year ago - 1 comment
Labels: enhancement, invalid

#19 - Update Python to 3.11

Pull Request - State: closed - Opened by timtroendle over 1 year ago

#19 - Update Python to 3.11

Pull Request - State: closed - Opened by timtroendle over 1 year ago

#18 - Add snakemake's `conda-prefix` as config option

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#18 - Add snakemake's `conda-prefix` as config option

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#17 - Add snakemake object to Pyright builtins to avoid linting errors in VSCode

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#17 - Add snakemake object to Pyright builtins to avoid linting errors in VSCode

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#16 - Upgrade to Python 3.11

Issue - State: closed - Opened by timtroendle over 1 year ago - 2 comments
Labels: enhancement

#16 - Upgrade to Python 3.11

Issue - State: closed - Opened by timtroendle over 1 year ago - 2 comments
Labels: enhancement

#15 - Simplify Snakemake calls by defining default profile within env

Pull Request - State: closed - Opened by timtroendle over 1 year ago

#14 - Set Snakemake profile through environment variable

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#14 - Set Snakemake profile through environment variable

Issue - State: closed - Opened by timtroendle over 1 year ago
Labels: enhancement

#13 - A potential bug about AttributeError and its solution

Issue - State: closed - Opened by zhaosu99 almost 2 years ago
Labels: bug

#13 - A potential bug about AttributeError and its solution

Issue - State: closed - Opened by zhaosu99 almost 2 years ago
Labels: bug

#12 - Add publication rule

Issue - State: open - Opened by timtroendle almost 2 years ago
Labels: enhancement

#12 - Add publication rule

Issue - State: open - Opened by timtroendle almost 2 years ago
Labels: enhancement

#11 - Provide Slurm cluster interface

Issue - State: open - Opened by timtroendle about 2 years ago - 1 comment
Labels: enhancement

#11 - Provide Slurm cluster interface

Issue - State: open - Opened by timtroendle about 2 years ago - 1 comment
Labels: enhancement

#10 - Add feather-to-csv and netcdf-to-csv util rules

Issue - State: open - Opened by timtroendle about 2 years ago
Labels: enhancement

#10 - Add feather-to-csv and netcdf-to-csv util rules

Issue - State: open - Opened by timtroendle about 2 years ago
Labels: enhancement

#9 - Make report optional

Issue - State: open - Opened by timtroendle about 2 years ago
Labels: enhancement

#9 - Make report optional

Issue - State: open - Opened by timtroendle about 2 years ago
Labels: enhancement

#8 - Ensure minimal base env

Issue - State: closed - Opened by timtroendle over 2 years ago
Labels: enhancement

#8 - Ensure minimal base env

Issue - State: closed - Opened by timtroendle over 2 years ago
Labels: enhancement

#7 - Add automated reruns triggered by code/params/env changes

Issue - State: closed - Opened by timtroendle over 2 years ago
Labels: enhancement

#7 - Add automated reruns triggered by code/params/env changes

Issue - State: closed - Opened by timtroendle over 2 years ago
Labels: enhancement

#6 - Update Snakemake (cluster) configuration

Issue - State: closed - Opened by timtroendle over 2 years ago
Labels: enhancement

#6 - Update Snakemake (cluster) configuration

Issue - State: closed - Opened by timtroendle over 2 years ago
Labels: enhancement

#5 - Add test infrastructure for build artefacts

Issue - State: closed - Opened by timtroendle over 2 years ago - 1 comment
Labels: enhancement

#5 - Add test infrastructure for build artefacts

Issue - State: closed - Opened by timtroendle over 2 years ago - 1 comment
Labels: enhancement

#4 - Add euro-calliope template

Issue - State: open - Opened by timtroendle over 3 years ago
Labels: enhancement

#4 - Add euro-calliope template

Issue - State: open - Opened by timtroendle over 3 years ago
Labels: enhancement

#3 - Feature cluster support

Pull Request - State: closed - Opened by timtroendle over 3 years ago - 1 comment

#3 - Feature cluster support

Pull Request - State: closed - Opened by timtroendle over 3 years ago - 1 comment

GitHub / timtroendle/cookiecutter-reproducible-research issues and pull requests