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update khmer#49276

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lskatz wants to merge 69 commits intobioconda:masterbioconda/bioconda-recipes:masterfrom lskatz:khmerlskatz/bioconda-recipes:khmerCopy head branch name to clipboard

+123-19

Commits

Commits on Jul 15, 2024

• python <3.12

  lskatz

  committed
  d235628

• shoot forgot to add a new build number

  lskatz

  committed
  3c89534

• added name variable; added new pin_subpackage command

  lskatz

  committed
  500a02a

Commits on Jul 17, 2024

• Update python pinnings

  rpetit3

  authored
  2df58db

• Merge branch 'master' into khmer

  rpetit3

  authored
  78168e0

• attempt to fix missing longintrepr.h problem

  dr-joe-wirth

  authored
  fe89993

• this should prevent skipping versions of 3.11 that are >3.11.0

  dr-joe-wirth

  authored
  7c2dcb4

• is this a problem with the skip step? let's try commenting it out

  dr-joe-wirth

  authored
  3a77668

• Sometimes chatgpt is smart, but it is not this day

  dr-joe-wirth

  authored
  1225f0e

• Python added to build

  dr-joe-wirth

  authored
  f90f96f

Commits on Jul 18, 2024

• update python pinnings

  mencian

  committed
  5eb074e

• add c compiler back

  mencian

  committed
  9101adf

• seeing if a lower version of khmer will build.

  dr-joe-wirth

  authored
  d668c95

• Revert "seeing if a lower version of khmer will build."

  Show description for 6396c5a
  dr-joe-wirth

  committed
  6396c5a

Commits on Jul 24, 2024

• Merge branch 'master' into khmer

  mencian

  authored
  d26c86e

• Merge branch 'master' into khmer

  mencian

  authored
  bb054f3

Commits on Jul 29, 2024

• Merge branch 'master' into khmer

  dr-joe-wirth

  authored
  7378ed0

Commits on Aug 6, 2024

• trying to see if v2.1.1 will build

  dr-joe-wirth

  authored
  b5c5aab

• Fix build number to appease linter

  dr-joe-wirth

  authored
  c61e228

Commits on Aug 7, 2024

• added gcc as a build requirement

  dr-joe-wirth

  authored
  a710fc5

• can't include gcc; it offends the linter

  dr-joe-wirth

  authored
  f006f5e

• seeing if adding compiler to host will fix missing gcc issue

  dr-joe-wirth

  authored
  3f132a4

• appeasing the linter

  dr-joe-wirth

  authored
  5ad90fc

• add libgcc-ng explicitly to give the linter the ole runaround

  lskatz

  authored
  aa58b72

• remove patch and remove compiler in host step

  lskatz

  committed
  57cc445

• revert

  lskatz

  committed
  4905cab

• add the programs from the third-party subdirectory

  lskatz

  committed
  faf097f

• patch setup.py to not install dependencies

  lskatz

  committed
  7b35d1a

• capitalize False

  lskatz

  committed
  bfa0bf2

• Revert "capitalize False"

  Show description for d292d9e
  lskatz

  committed
  d292d9e

• capitalize False

  lskatz

  committed
  997edb6

Commits on Aug 8, 2024

• I think zlib is needed at runtime

  dr-joe-wirth

  authored
  cf41d92

• might as well add the other new dependencies to 'run'

  lskatz

  committed
  4a6ede9

• remove zlibdir and bzip2dir definitions

  lskatz

  committed
  46c4be0

• new patch to remove lib third party dependencies

  lskatz

  committed
  a4b06cc

• python-dev

  lskatz

  committed
  b91403e

• remove python-dev which isn't a real thing and put python into build

  lskatz

  committed
  f2ab584

• smhasher to run:

  lskatz

  committed
  0e490a2

• include_dirs; mmh3 libraries

  lskatz

  committed
  9e81815

• adding back smhasher third-party directory to include_dirs

  dr-joe-wirth

  authored
  23a16fd

• removed mmh3 from run

  dr-joe-wirth

  authored
  c95958f

• removed smhasher from build and run

  dr-joe-wirth

  authored
  6deaf33

• hopefully including the directory where seqan header files live

  dr-joe-wirth

  authored
  6d6e998

• does chat-gpt know where header files live?

  dr-joe-wirth

  authored
  31748a9

• more paths for the libs

  lskatz

  committed
  b0dfca9

• add some debugging steps

  lskatz

  committed
  c258382

• need to include lib to find khmer.hh

  dr-joe-wirth

  authored
  0307736

• add build.sh to help us import libraries and have compiler flags

  lskatz

  committed
  c82c09e

• move build to build.sh

  lskatz

  committed
  7a896ea

• adding third party seqan libs

  lskatz

  committed
  a0d808b

• remove external seqan

  lskatz

  committed
  ce5620d

• BUILD_PREFIX->PWD in some paths

  lskatz

  committed
  b97ec2d

• cp in seqan libraries to include

  lskatz

  committed
  485df9f

Commits on Aug 9, 2024

• debugging statements

  lskatz

  committed
  e9a955f

• fix include/seqan bug

  lskatz

  committed
  e696b4c

• fix include/seqan bug

  lskatz

  committed
  0840ed6

• fix cp statement and add mkdir

  lskatz

  committed
  3af0eec

• use $PYTHON instead of 'python3' in build

  lskatz

  committed
  fdb31cc

• cute debug to find khmer path

  dr-joe-wirth

  authored
  730f476

• setting zlib version to match the version in third-party

  dr-joe-wirth

  authored
  4864b18

• patching out dependencies from

  dr-joe-wirth

  committed
  b596c92

• revising zlib version requirement

  dr-joe-wirth

  authored
  bdffee9

• forgot to apply the patch to remove dependencies in manifest

  dr-joe-wirth

  authored
  97fa387

• fixed patch

  dr-joe-wirth

  authored
  43de852

• trying to statically link conda-installed zlib (chat-gpt helped)

  dr-joe-wirth

  authored
  8019cf3

• fixed typo

  dr-joe-wirth

  authored
  bfd9477

• Revert "fixed typo"

  Show description for 0cc6dd8
  dr-joe-wirth

  committed
  0cc6dd8

• Revert "trying to statically link conda-installed zlib (chat-gpt helped)"

  Show description for 31ceb83
  dr-joe-wirth

  committed
  31ceb83

Commits on Nov 21, 2024

• Merge branch 'master' into khmer

  mencian

  authored
  8205a3d