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Run From Anywhere #125

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Run From Anywhere #125

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Commits on Apr 8, 2024

  1. initial docker file. Still not working but it's a start

    @BrandonFrenz
    BrandonFrenz committed Apr 8, 2024
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Commits on Apr 19, 2024

  1. more updates to fix database pathing issues

    @BrandonFrenz
    BrandonFrenz committed Apr 19, 2024
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Commits on May 3, 2024

  1. updated the docker file to run without interactive mode

    @BrandonFrenz
    BrandonFrenz committed May 3, 2024
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  2. got docker micromamba environment working properly and added copied o… 

    …ver a drone file and updated it
    @BrandonFrenz
    BrandonFrenz committed May 3, 2024
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Commits on May 10, 2024

  1. shrunk docker image and fixed issues with psipred and blast

    @BrandonFrenz
    BrandonFrenz committed May 10, 2024
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Commits on May 13, 2024

  1. fix to the database path. I don't know how this extra b got there but… 

    … it's probably fine to just leave it.
    @BrandonFrenz
    BrandonFrenz committed May 13, 2024
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Commits on May 14, 2024

  1. changed out the drone file. No idea if this is correct

    @BrandonFrenz
    BrandonFrenz committed May 14, 2024
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  2. small fixes in drone

    @JYlag
    JYlag committed May 14, 2024
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  3. remove jsonnet file

    @JYlag
    JYlag committed May 14, 2024
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  4. remove vim rc file

    @JYlag
    JYlag committed May 14, 2024
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  5. adding version file

    @JYlag
    JYlag committed May 14, 2024
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  6. Merge pull request #1 from CyrusBiotechnology/docker 

    Adds the docker file necessary to build the image and also the .drone.jsonnet
    @BrandonFrenz
    BrandonFrenz authored May 14, 2024
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  7. added the cut version tag script

    @BrandonFrenz
    BrandonFrenz committed May 14, 2024
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  8. bumped version

    @BrandonFrenz
    BrandonFrenz committed May 14, 2024
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  9. Merge pull request #2 from CyrusBiotechnology/cut-version-tag 

    Cut version tag
    @BrandonFrenz
    BrandonFrenz authored May 14, 2024
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Commits on May 20, 2024

  1. merged with original

    @BrandonFrenz
    BrandonFrenz committed May 20, 2024
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  2. changed the make_ss script to only set the BLASTMAT variable if it ha… 

    …s not already been set. This provides the freedom to use a blast that hasn't been installed in the main directory
    @BrandonFrenz
    BrandonFrenz committed May 20, 2024
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  3. removed a comment

    @BrandonFrenz
    BrandonFrenz committed May 20, 2024
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  4. bumped version

    @BrandonFrenz
    BrandonFrenz committed May 20, 2024
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Commits on May 21, 2024

  1. reverted base.yaml to the original

    @BrandonFrenz
    BrandonFrenz committed May 21, 2024
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Commits on May 24, 2024

  1. Merge pull request #4 from CyrusBiotechnology/sync-5-20-2024 

    Syncing our branch with the original repo.
    @BrandonFrenz
    BrandonFrenz authored May 24, 2024
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  2. removed VERSION and drone file

    @BrandonFrenz
    BrandonFrenz committed May 24, 2024
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  3. minor cleanup to the Dockerfile

    @BrandonFrenz
    BrandonFrenz committed May 24, 2024
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Commits on May 28, 2024

  1. Merge pull request #5 from CyrusBiotechnology/docker-cleanup 

    minor cleanup to the Dockerfile
    @BrandonFrenz
    BrandonFrenz authored May 28, 2024
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  2. started updating the read.me

    @BrandonFrenz
    BrandonFrenz committed May 28, 2024
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Commits on May 29, 2024

  1. fix to pathing for the BFD environment variablee in the docker file a… 

    …nd error in setting the default path in the make_msa.sh script
    @BrandonFrenz
    BrandonFrenz committed May 29, 2024
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  2. formating cleanup

    @BrandonFrenz
    BrandonFrenz committed May 29, 2024
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  3. more cleanup for the readme

    @BrandonFrenz
    BrandonFrenz committed May 29, 2024
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  4. Merge pull request #6 from CyrusBiotechnology/docker-cleanup 

    This PR cleans up some of the unnecessary lines in the Dockerfile it also fixes a bug in the make_msa.sh script where the variables were set.
    @BrandonFrenz
    BrandonFrenz authored May 29, 2024
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  5. forgot to bump version

    @BrandonFrenz
    BrandonFrenz committed May 29, 2024
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  6. fixed the typo in the database path

    @BrandonFrenz
    BrandonFrenz committed May 29, 2024
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Commits on May 30, 2024

  1. Merge pull request #7 from CyrusBiotechnology/typo-fix 

    fixed the typo in the database path
    @BrandonFrenz
    BrandonFrenz authored May 30, 2024
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Commits on Jun 6, 2024

  1. created an example directory to run docker jobs

    @BrandonFrenz
    BrandonFrenz committed Jun 6, 2024
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  2. merged my fixes

    @BrandonFrenz
    BrandonFrenz committed Jun 6, 2024
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  3. Merge branch 'baker-laboratory-main' into run-from-anywhere

    @BrandonFrenz
    BrandonFrenz committed Jun 6, 2024
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  4. reverted unnecessary change to the install_dependencies.sh script

    @BrandonFrenz
    BrandonFrenz committed Jun 6, 2024
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Commits on Jul 18, 2024

  1. Merge branch 'main' into run-from-anywhere

    @decarboxy
    decarboxy authored Jul 18, 2024
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Commits on Oct 7, 2024

  1. updated the example to remove references to my filesystem paths and p… 

    …rovided additional information on how to set the input arguments
    @BrandonFrenz
    BrandonFrenz committed Oct 7, 2024
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  2. Merge branch 'run-from-anywhere' of github.com:CyrusBiotechnology/Ros… 

    …eTTAFold-All-Atom into run-from-anywhere
    @BrandonFrenz
    BrandonFrenz committed Oct 7, 2024
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