Code

Add support for generic git remotes#1641

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ewels merged 58 commits intonf-core:devnf-core/tools:devfrom ErikDanielsson:get-generic-gitErikDanielsson/tools:get-generic-gitCopy head branch name to clipboardJun 21, 2022

+845-700

Commits

Commits on Jun 16, 2022

• Rewriting intialisation of ModulesRepo

  ErikDanielsson

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  fb6d3c2

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• Setup should be done

  ErikDanielsson

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  63beb2c

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• Rationalize variables

  ErikDanielsson

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  b0b640f

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• Update module file download

  ErikDanielsson

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  babf143

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• Downloading at different refs

  ErikDanielsson

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  e55ab0a

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• Merge branch 'dev' of github.com:nf-core/tools into get-generic-git

  ErikDanielsson

  committed
  2a47e79

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• Fix get_module_git_log

  ErikDanielsson

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  112b103

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Commits on Jun 17, 2022

• Update file comparision functionality

  ErikDanielsson

  committed
  6953cf9

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• add comment to prompt func

  ErikDanielsson

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  bc1c067

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• Update prompt function

  ErikDanielsson

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  3186292

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• Update sha_exists

  ErikDanielsson

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  9c61c72

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• Bugfixing - starting to work now

  ErikDanielsson

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  a31870e

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• Update git commit info

  ErikDanielsson

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  ee2f8d6

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• Add no-pull option

  ErikDanielsson

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  b7a7ce4

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• Start updating modules.json functionality

  ErikDanielsson

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  23aefc9

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• Update remaining modules.json functionality. Add new entry for git URL

  ErikDanielsson

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  948a4db

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• Remove gh api functions

  ErikDanielsson

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  ff4a6ee

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• Remove more api stuff

  ErikDanielsson

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  b85c212

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• Remove verify_pipeline. We cannot provide this functionality with the more flexible git support

  ErikDanielsson

  committed
  c251e74

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• Remove gh api

  ErikDanielsson

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  458e6bc

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• Misc bugfix

  ErikDanielsson

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  0c99465

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Commits on Jun 18, 2022

• Fix bugs in create mod json and init of ModulesRepo

  ErikDanielsson

  committed
  6379992

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• Remove old functions

  ErikDanielsson

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  b093fc9

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• Update module names functionality

  ErikDanielsson

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  4b405fd

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• ask -> unsafe_ask

  ErikDanielsson

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  d7e8e8b

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• Remove print statements

  ErikDanielsson

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  928c905

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• Fix get_avail_modules

  ErikDanielsson

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  cc6ccef

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• Fix module name selection

  ErikDanielsson

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  829f09f

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• Make update work

  ErikDanielsson

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  1a69c4e

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• Add progress bars when cloning and pulling remote

  ErikDanielsson

  committed
  a9eaf14

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• Add static variables for keeping track of pull status

  ErikDanielsson

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  99f581d

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• Use @staticmethod method instead of @classmethod...

  ErikDanielsson

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  6824918

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• Fix modules list

  ErikDanielsson

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  770e4e1

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Commits on Jun 19, 2022

• Fix info

  ErikDanielsson

  committed
  ab09a58

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• Update main function

  ErikDanielsson

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  b698585

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• Bug fix, user info and new option --no-pull

  ErikDanielsson

  committed
  632fc67

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• Remove unused function and update comments

  ErikDanielsson

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  fdfde82

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• Update CHANGELOG.md

  ErikDanielsson

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  d7c46bb

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• Update docs

  ErikDanielsson

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  a6b6521

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• Fix docs

  ErikDanielsson

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  91d7bf8

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Commits on Jun 20, 2022

• Fix dry run bug

  ErikDanielsson

  committed
  ae05e73

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• Remove double creation of ModulesRepo

  ErikDanielsson

  committed
  c973783

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• Fix list local

  ErikDanielsson

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  1bf1db7

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• Fix no-pull

  ErikDanielsson

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  76374e3

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• Update tests

  ErikDanielsson

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  c166aa1

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• Fix the last bugs

  ErikDanielsson

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  e97d30c

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• Remove sneaky api calls

  ErikDanielsson

  committed
  7c70169

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• make work with https

  ErikDanielsson

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  08b92d8

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• isort

  ErikDanielsson

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  305ead8

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• Don't fail horribly due to LookupError

  ErikDanielsson

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  5e7c1a3

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• black

  ErikDanielsson

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  228973a

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Commits on Jun 21, 2022

• Fix lookup bug

  ErikDanielsson

  committed
  b30007e

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• General cleanup. Change where files are cloned

  ErikDanielsson

  committed
  80c6c20

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• Apply suggestions from code review

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  ErikDanielsson

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  ewels

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• Use .config

  ErikDanielsson

  committed
  f994bd3

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• Update docs

  ErikDanielsson

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  b4d4b89

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• Merge branch 'dev' of github.com:nf-core/tools into get-generic-git

  ErikDanielsson

  committed
  1b1b7e3

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• Merge branch 'get-generic-git' of github.com:ErikDanielsson/tools into get-generic-git

  ErikDanielsson

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