Complete the exts_list to avoid missing deps issues - #12

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macheitor wants to merge 87 commits into

feature-complete-exts-list

Commits on Oct 28, 2024

Add .venv* to .gitignore file
Victor Machado
committed
a710a8b
Update exts_list versions implemented
Victor Machado
committed
f47e912

Commits on Oct 30, 2024

Minior fixes to match EB style
dagonzalezfo
committed
51d521f

Commits on Oct 31, 2024

Delete printing magic numbers offsets
Victor Machado
committed
8e77236
Change NotImplementedError for EasyBuildError
Victor Machado
committed
4653be7
Avoid direct references to class variables from outside the class.
Victor Machado
committed
fa11840
Improved variable string type check when writing down options in new easyconfig file.
Victor Machado
committed
fab8112
Added support for bioconductor packages
Victor Machado
committed
7bbf2e4

Commits on Nov 4, 2024

clean code
Victor Machado
committed
df2b442

Commits on Nov 7, 2024

Merge pull request #7 from HPCNow/feature-update-exts-list-versions-to-latest-bioconductor
macheitor
authored
7eaa222

Commits on Nov 8, 2024

Update_exts_list outside of EasyBlock class
Victor Machado
committed
3374b22
Refactor magic string
Victor Machado
committed
dbe9d65

Commits on Nov 11, 2024

Getters for exts_list, exts_defaultclass and bioconductor_version.
Victor Machado
committed
0e30a6e

Commits on Nov 12, 2024

Implemented crosscheck between exts_list and extensions installed by dependencies
Victor Machado
committed
b172db8

Commits on Nov 14, 2024

Avoid getting the exts_list of the orginal easyconfig
Victor Machado
committed
c5703c1
Do not update extensions that are on base R
Victor Machado
committed
bf56361
Fix update exts list with base R extensions
Victor Machado
committed
7d01f4c
Fix R base packages
Victor Machado
committed
e9a60f9

Commits on Nov 15, 2024

CleanCode
Victor Machado
committed
aaacf9d
Clarify case where extensions in exts_list is a string
Victor Machado
committed
1f9a1aa
Calculate MD5 checksum for R packages that do not have MD5 in their CRANDB's metadata
Victor Machado
committed
663211a
Merge branch 'develop' into feature-update-exts-list-versions-to-latest
Victor Machado
committed
9146cd2
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
22de1aa
Clean code and minor comments
Victor Machado
committed
ee73df9
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
2295983
Unify destructuring extensions
Victor Machado
committed
7e3d7c5

Commits on Nov 20, 2024

Clean code and improvement of error handling
Victor Machado
committed
40bf8d2
Clean code and minor improvements
Victor Machado
committed
4b0ae39
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
5622557
Clean code and minor improvements
Victor Machado
committed
b916a38
Delete get_exts_list console messages
Victor Machado
committed
6888b8b
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
23efa0d

Commits on Nov 21, 2024

spelling error
Victor Machado
committed
886716d
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
2be731e
Added pythonBundle easyblock check for deducing exts_defaultclass in python bundles
Victor Machado
committed
272c779
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
6500758
Fix recursivity issue: we were not storing extensions of bottom of recursivity
Victor Machado
committed
5e34872
Clean code and error check
Victor Machado
committed
5039cf4

Commits on Nov 22, 2024

Add .vscode folder to the .gitignore file
Victor Machado
committed
f4fb003
Gather update exts feature into exts_tools.py file
Victor Machado
committed
5eca48d
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
b0d6ef2
Add _get_extension_values function
Victor Machado
committed
83eb6fc
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
f0bf88b
Delete trail space
Victor Machado
committed
09a74ae
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
f4d7fc4
Get rid of _calculate_md5 function
Victor Machado
committed
2182bd9
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
0261601
Delete .vscode files from git repo
Victor Machado
committed
5563d45
Delete unwanted easyblock changes
Victor Machado
committed
a20fb5c
Unifying PRs
Victor Machado
committed
d50b376

Commits on Nov 25, 2024

Clean code and clean output in terminal
Victor Machado
committed
6bee79c

Commits on Nov 26, 2024

--complete-exts-list for R implemented
Victor Machado
committed
60d8ecf
Improve output messaging
Victor Machado
committed
c781bd8
Merge branch 'feature-repeated-exts-list' into feature-complete-exts-list
Victor Machado
committed
cde7450
Improved messaging
Victor Machado
committed
a7b7247

Commits on Nov 27, 2024

Clean code and improve terminal messaging
Victor Machado
committed
b62d621
Minor terminal output improvements
Victor Machado
committed
5343de9
terminal output improvements
Victor Machado
committed
1da7dba
bugfix
Victor Machado
committed
2e1120a
terminal output improve
Victor Machado
committed
89c9d19

Commits on Nov 28, 2024

Remove duplicates from exts_list
Victor Machado
committed
d8386dc

Commits on Nov 29, 2024

Bugfix recursive call for R dependencies
Victor Machado
committed
5f4008b
Unify extensions check flag name
Victor Machado
committed
9f6dcba
Merge branch 'feature-repeated-exts-list' into feature-complete-exts-list
Victor Machado
committed
7ab493f
Separation of concerns on complete_R_exts_list functions
Victor Machado
committed
b7dc7ea
Minor terminal output improvement
Victor Machado
committed
ac8950e
Bugfix when merging check_exts_list with complete_exts_list
Victor Machado
committed
f51251f
Bugfix check_exts_list call
Victor Machado
committed
9b618cd
Merge branch 'feature-repeated-exts-list' into feature-complete-exts-list
Victor Machado
committed
c915800

Commits on Nov 30, 2024

Commits on Dec 2, 2024

get installed exts is processed using parallel threads
Victor Machado
committed
71b88be
Improve terminal output in while getting extensions
macheitor
committed
8ea6776

Commits on Dec 3, 2024

fulfill extensions is now parallel
Victor Machado
committed
4eff58d
Update extensions is now parallel
Victor Machado
committed
77569b1
Merge branch 'feature-update-exts-list-versions-to-latest' into feature-repeated-exts-list
Victor Machado
committed
6934a82
Merge branch 'feature-repeated-exts-list' into feature-complete-exts-list
Victor Machado
committed
dd9e2ab
removing duplicated function
Victor Machado
committed
5489338
Get R dependencies processed in parallel
Victor Machado
committed
742b5a7

Commits on Dec 4, 2024

Added TODO comment
Victor Machado
committed
4b3d03f