Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

iedb workflow #9

Open
wants to merge 20 commits into
base: webdb_workflow
Choose a base branch
from
Open

iedb workflow #9

wants to merge 20 commits into from

Commits on Mar 19, 2024

  1. add placeholder for getAndUnpack/loadDataset for iedb epitopes

    @jbrestel
    jbrestel committed Mar 19, 2024
    Configuration menu
    Copy the full SHA
    ec94b88 View commit details
    Browse the repository at this point in the history

Commits on Apr 2, 2024

  1. Updated the project.xml to add template for the epitope analysis, add… 

    … MakeEpitopeMappingNextflowConfig.pm to make the nextflow confing and the mapEpitopeNextflow.xml for the epitope mapping
    @sybah2
    sybah2 committed Apr 2, 2024
    Configuration menu
    Copy the full SHA
    1ca7697 View commit details
    Browse the repository at this point in the history

Commits on Apr 4, 2024

  1. Updated the mapEpitopeNextflow.xml

    @sybah2
    sybah2 committed Apr 4, 2024
    Configuration menu
    Copy the full SHA
    0f099a1 View commit details
    Browse the repository at this point in the history

Commits on Apr 8, 2024

  1. Updated the project.xml and mapEpitopeNextflow.xml for the epitope ma… 

    …pping
    @sybah2
    sybah2 committed Apr 8, 2024
    Configuration menu
    Copy the full SHA
    508dec5 View commit details
    Browse the repository at this point in the history

  2. Updated the datasetName and dependency in the project.xml file and in… 

    … the mapEpitopeNextflow.xml
    @sybah2
    sybah2 committed Apr 8, 2024
    Configuration menu
    Copy the full SHA
    977844f View commit details
    Browse the repository at this point in the history

Commits on Apr 9, 2024

  1. Moved the component_epitope_IEDB_RSRC subgraph to the top of the proj… 

    …ect xml and moved the iedb_epitope nextflow mapping subgraph into the organism template. Updated the mapEpitopeNextflow.xml and remove the loading step that is already done in project.xml
    @sybah2
    sybah2 committed Apr 9, 2024
    Configuration menu
    Copy the full SHA
    cf609ca View commit details
    Browse the repository at this point in the history

  2. Updated teh mapEpitopeNextflow.xml to fill the taxon

    @sybah2
    sybah2 committed Apr 9, 2024
    Configuration menu
    Copy the full SHA
    cdbc52b View commit details
    Browse the repository at this point in the history

  3. some refactoring and dependency fixes

    @jbrestel
    jbrestel committed Apr 9, 2024
    Configuration menu
    Copy the full SHA
    47d2b79 View commit details
    Browse the repository at this point in the history

Commits on Apr 17, 2024

  1. Merge branch 'webdb_workflow' into iedbWorkflow

    @jbrestel
    jbrestel committed Apr 17, 2024
    Configuration menu
    Copy the full SHA
    73ee8e1 View commit details
    Browse the repository at this point in the history

Commits on Apr 18, 2024

  1. Added the loading step in the mapEpitopeNextflow.xml and added a perl… 

    … modules in the WorkflowSteps to load the epitope results
    @sybah2
    sybah2 committed Apr 18, 2024
    Configuration menu
    Copy the full SHA
    4034930 View commit details
    Browse the repository at this point in the history

  2. Merge branch 'iedbWorkflow' of github.com:VEuPathDB/ApiCommonWorkflow… 

    … into iedbWorkflow
    @sybah2
    sybah2 committed Apr 18, 2024
    Configuration menu
    Copy the full SHA
    c474522 View commit details
    Browse the repository at this point in the history

Commits on Apr 19, 2024

  1. Updated the mapEpitopeNextflow.xml to add the external dabase release… 

    … ID. Need to confirm that with John
    @sybah2
    sybah2 committed Apr 19, 2024
    Configuration menu
    Copy the full SHA
    1ed7be4 View commit details
    Browse the repository at this point in the history

  2. Merge branch 'webdb_workflow' into iedbWorkflow

    @jbrestel
    jbrestel committed Apr 19, 2024
    Configuration menu
    Copy the full SHA
    b2fb8c3 View commit details
    Browse the repository at this point in the history

Commits on Apr 24, 2024

  1. Merge branch 'webdb_workflow' into iedbWorkflow

    @jbrestel
    jbrestel committed Apr 24, 2024
    Configuration menu
    Copy the full SHA
    4967d69 View commit details
    Browse the repository at this point in the history

  2. Updated the mapEpitopeNextflow.xml and the project.xml for the iedb e… 

    …pitpe analysis
    @sybah2
    sybah2 committed Apr 24, 2024
    Configuration menu
    Copy the full SHA
    80409e8 View commit details
    Browse the repository at this point in the history

Commits on May 1, 2024

  1. Add speciesNcbiTaxonId prop to organism graph for IEDB workflow

    @kathryncrouch
    kathryncrouch committed May 1, 2024
    Configuration menu
    Copy the full SHA
    c6d7d70 View commit details
    Browse the repository at this point in the history

Commits on May 9, 2024

  1. Updated the nextflow making perl module, componentGlobal graph, mapEp… 

    …itopeNextflow.xml and InsertAaSequenceEpitope.pm
    @sybah2
    sybah2 committed May 9, 2024
    Configuration menu
    Copy the full SHA
    87929a6 View commit details
    Browse the repository at this point in the history

Commits on May 10, 2024

  1. Updated the /mapEpitopeNextflow.xml and MakeEpitopeMappingNextflowCon… 

    …fig.pm script to correct file paths
    @sybah2
    sybah2 committed May 10, 2024
    Configuration menu
    Copy the full SHA
    8c8ab3f View commit details
    Browse the repository at this point in the history

Commits on May 14, 2024

  1. Updated the MakeEpitopeMappingNextflowConfig.pm file paths, component… 

    …GlobalGraph.xml and mapEpitopeNextflow.xml xml graphs
    @sybah2
    sybah2 committed May 14, 2024
    Configuration menu
    Copy the full SHA
    b89690c View commit details
    Browse the repository at this point in the history

Commits on May 17, 2024

  1. Updated the mapEpitopeNextflow.xml and added the config param for loa… 

    …ding the epitope peptide match result
    @sybah2
    sybah2 committed May 17, 2024
    Configuration menu
    Copy the full SHA
    883d6da View commit details
    Browse the repository at this point in the history