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timtroendle
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cookiecutter-reproducible-research
A cookiecutter template for reproducible research projects using Python, Snakemake, and Pandoc.
MIT License
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Update Snakemake from 7.32 to 8.10.7
#37
timtroendle
closed
6 months ago
0
Move to ruff
#36
timtroendle
closed
6 months ago
0
Ensure that conda envs do not include default packages
#35
timtroendle
closed
6 months ago
1
Add affiliations to documents
#34
timtroendle
opened
8 months ago
1
Add epub output
#33
timtroendle
opened
8 months ago
0
Update to released pytest-html version
#32
timtroendle
closed
8 months ago
0
Improve test infrastructure
#31
timtroendle
closed
8 months ago
1
Add ==highlighting== option for reports
#30
timtroendle
closed
8 months ago
0
Add Snakemake workflow profile as override of local profile
#29
timtroendle
closed
8 months ago
0
pytest-pythonpath is obsolete as of pytest 7
#28
timtroendle
closed
8 months ago
0
Simplify DAG creation
#27
timtroendle
closed
8 months ago
0
Make demo case optional
#26
timtroendle
opened
1 year ago
0
Update from pandoc-xnos to pandoc-crossref
#25
timtroendle
closed
1 year ago
0
Rename `tags` to `keywords`
#24
timtroendle
closed
8 months ago
1
Conflict between pandoc-tablenos and pantable
#23
timtroendle
closed
1 year ago
1
Add math to PDF
#22
timtroendle
opened
1 year ago
0
Add conda-prefix to configuration
#21
timtroendle
closed
1 year ago
0
Add test of DAG rule
#20
timtroendle
closed
1 year ago
1
Update Python to 3.11
#19
timtroendle
closed
1 year ago
0
Add snakemake's `conda-prefix` as config option
#18
timtroendle
closed
1 year ago
0
Add snakemake object to Pyright builtins to avoid linting errors in VSCode
#17
timtroendle
closed
1 year ago
0
Upgrade to Python 3.11
#16
timtroendle
closed
1 year ago
2
Simplify Snakemake calls by defining default profile within env
#15
timtroendle
closed
1 year ago
0
Set Snakemake profile through environment variable
#14
timtroendle
closed
1 year ago
0
A potential bug about AttributeError and its solution
#13
zhaosu99
closed
1 year ago
0
Add publication rule
#12
timtroendle
opened
2 years ago
0
Provide Slurm cluster interface
#11
timtroendle
opened
2 years ago
1
Add feather-to-csv and netcdf-to-csv util rules
#10
timtroendle
opened
2 years ago
0
Make report optional
#9
timtroendle
opened
2 years ago
0
Ensure minimal base env
#8
timtroendle
closed
2 years ago
0
Add automated reruns triggered by code/params/env changes
#7
timtroendle
closed
2 years ago
0
Update Snakemake (cluster) configuration
#6
timtroendle
closed
2 years ago
0
Add test infrastructure for build artefacts
#5
timtroendle
closed
8 months ago
1
Add euro-calliope template
#4
timtroendle
opened
3 years ago
0
Feature cluster support
#3
timtroendle
closed
3 years ago
1
Add a default configuration file
#2
timtroendle
closed
3 years ago
0
Switch to improved citation formatting in pandoc 2.11
#1
timtroendle
closed
1 year ago
2