sokrypton / sokrypton/ColabFold

Add a --version argument

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enhancement good first issue
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Description

Expected Behavior

colabfold_batch --version, colabfold_search --version, colabfold_split_msas --version should all return the version of the release.

Current Behavior

No version returned, no --version argument

Steps to Reproduce (for bugs)

colabfold_search --version

ColabFold Output (for bugs)

$ ./colabfold_search --version usage: colabfold_search [-h] [-s S] [--db1 DB1] [--db2 DB2] [--db3 DB3] [--use-env {0,1}] [--use-templates {0,1}] [--filter {0,1}] [--mmseqs MMSEQS] [--expand-eval EXPAND_EVAL] [--align-eval ALIGN_EVAL] [--diff DIFF] [--qsc QSC] [--max-accept MAX_ACCEPT] [--db-load-mode DB_LOAD_MODE] [--threads THREADS] query dbbase base colabfold_search: error: the following arguments are required: query, dbbase, base

Context

We try to make reproducible workflows. Version stamps are critical to this process.

Your Environment

HPC cluster, slurm
Various linux/unix

Contributor guide

Open the contributing guide

First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start by locating the entry points for colabfold_batch, colabfold_search, and colabfold_split_msas and determine how the release version is defined. Verify that each command accepts --version and returns the release version without requiring its normal positional arguments.

Written by the indexing model from the issue text.

Assessment

Domain
bioinformatics, cli
Issue type
Feature
Difficulty
3/5
Estimated time
1-2 days
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
35/100

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