Code

WIP: Update_packaging#732

Code

Merged

tanghaibao merged 48 commits intotanghaibao:maintanghaibao/jcvi:mainfrom Adamtaranto:update_packagingAdamtaranto/jcvi:update_packagingCopy head branch name to clipboardJan 4, 2025

+304-178

Commits

Commits on Feb 19, 2023

• Do not try to set usetex=False or resave

  Show description for 8e4c872
  Adamtaranto

  committed
  8e4c872

  Copy full SHA for 8e4c872

• Replace check_call with check_out in sh()

  Show description for 8029175
  Adamtaranto

  committed
  8029175

  Copy full SHA for 8029175

• Collect stderr msgs from lastal for use in

  Show description for a5225ec
  Adamtaranto

  committed
  a5225ec

  Copy full SHA for a5225ec

• Log suggestion to use --notex if savefig fails

  Adamtaranto

  committed
  3f7ad6d

  Copy full SHA for 3f7ad6d

Commits on Feb 20, 2023

• Add cleanup empty pdf before exit if savefig fails

  Adamtaranto

  committed
  00ff793

  Copy full SHA for 00ff793

• Merge branch 'main' of https://github.com/tanghaibao/jcvi

  Adamtaranto

  committed
  6b986bb

  Copy full SHA for 6b986bb

Commits on Feb 21, 2023

• Add logging to clarify why latex is

  Show description for e378e6f
  Adamtaranto

  committed
  e378e6f

  Copy full SHA for e378e6f

Commits on Feb 23, 2023

• Merge branch 'main' of https://github.com/tanghaibao/jcvi

  Adamtaranto

  committed
  2daf3dc

  Copy full SHA for 2daf3dc

Commits on Nov 14, 2024

• Merge remote-tracking branch 'upstream/main'

  Adamtaranto

  committed
  ae7c0ef

  Copy full SHA for ae7c0ef

Commits on Dec 25, 2024

• Merge branch 'tanghaibao:main' into main

  Adamtaranto

  authored
  c70602a

  Copy full SHA for c70602a

• ignore version and cython files

  Adamtaranto

  committed
  afb75ef

  Copy full SHA for afb75ef

• mv exclude to pyproject

  Adamtaranto

  committed
  4029d67

  Copy full SHA for 4029d67

• use hatch for build

  Adamtaranto

  committed
  6a5359e

  Copy full SHA for 6a5359e

• use hatch-vcs version

  Adamtaranto

  committed
  eff4eb6

  Copy full SHA for eff4eb6

• log error when no cblast

  Adamtaranto

  committed
  b77c309

  Copy full SHA for b77c309

• mv pkg into src

  Adamtaranto

  committed
  39b70d7

  Copy full SHA for 39b70d7

• ignore version

  Adamtaranto

  committed
  60ec604

  Copy full SHA for 60ec604

• init env yml

  Adamtaranto

  committed
  98752a8

  Copy full SHA for 98752a8

• rm version, switch to dynamic vcs version

  Adamtaranto

  committed
  011d467

  Copy full SHA for 011d467

• WIP: migrating to hatch

  Adamtaranto

  committed
  ed97aa1

  Copy full SHA for ed97aa1

Commits on Jan 3, 2025

• rm cblast.c from tracking

  Adamtaranto

  committed
  2678970

  Copy full SHA for 2678970

• ignore dev files

  Adamtaranto

  committed
  b203b88

  Copy full SHA for b203b88

• Use setuptools for cython modules

  Adamtaranto

  committed
  e5be700

  Copy full SHA for e5be700

• automate run setup.py for cython build

  Adamtaranto

  committed
  a640776

  Copy full SHA for a640776

• setup_magick_home() assumes ImageMagick always installed with homebrew on MacOS, change error to warning if homebrew path not found.

  Adamtaranto

  committed
  e6a722b

  Copy full SHA for e6a722b

• install non-pip deps using conda. Install libmagic without homebrew.

  Adamtaranto

  committed
  c6d1140

  Copy full SHA for c6d1140

• fix bug - incorrect selection of wget on MocOS without wget

  Adamtaranto

  committed
  66583b8

  Copy full SHA for 66583b8

• version to _version

  Adamtaranto

  committed
  f11b1a0

  Copy full SHA for f11b1a0

• bump min Python version.

  Adamtaranto

  committed
  81ab0b1

  Copy full SHA for 81ab0b1

• conda env instructions

  Adamtaranto

  committed
  34a5eb9

  Copy full SHA for 34a5eb9

• Do not try to set usetex=False or resave

  Show description for 63310a7
  Adamtaranto

  committed
  63310a7

  Copy full SHA for 63310a7

• Replace check_call with check_out in sh()

  Show description for 5535264
  Adamtaranto

  committed
  5535264

  Copy full SHA for 5535264

Commits on Jan 4, 2025

• Move files back to jcvi/

  Adamtaranto

  committed
  95fe1c0

  Copy full SHA for 95fe1c0

• Move jcvi to src/ directory with git mv

  Adamtaranto

  committed
  daf10f3

  Copy full SHA for daf10f3

• Merge branch 'main' into update_packaging

  Adamtaranto

  committed
  6468428

  Copy full SHA for 6468428

• optparse not used

  Adamtaranto

  committed
  a4c347f

  Copy full SHA for a4c347f

• use logger instead of logging

  Adamtaranto

  committed
  067553f

  Copy full SHA for 067553f

• fix conda env to py 3.12

  Adamtaranto

  committed
  e92fa50

  Copy full SHA for e92fa50

• init pytest action

  Adamtaranto

  committed
  c17ed8e

  Copy full SHA for c17ed8e

• black fmt

  Adamtaranto

  committed
  b259642

  Copy full SHA for b259642

• use miniforge

  Adamtaranto

  committed
  0fe1336

  Copy full SHA for 0fe1336

• switch run order

  Adamtaranto

  committed
  c224ef4

  Copy full SHA for c224ef4

• handle testing in build action

  Adamtaranto

  committed
  b7c6810

  Copy full SHA for b7c6810

• black fmt

  Adamtaranto

  committed
  7b3b890

  Copy full SHA for 7b3b890

• Add cython to deps

  Adamtaranto

  committed
  a8927ec

  Copy full SHA for a8927ec

• typo

  Adamtaranto

  committed
  429ee45

  Copy full SHA for 429ee45

• Add cli entrypoint to check version

  Adamtaranto

  committed
  bba6f13

  Copy full SHA for bba6f13

• update readme

  Adamtaranto

  committed
  b72b2c5

  Copy full SHA for b72b2c5