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GDCC/Globus and Big Data Support #8891

Merged
merged 215 commits into from
Sep 19, 2022

Commits on Sep 14, 2020

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Commits on Sep 30, 2020

  1. Remove flyway

    lubitchv committed Sep 30, 2020
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Commits on Oct 9, 2020

  1. Download with Globus

    lubitchv committed Oct 9, 2020
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Commits on Oct 14, 2020

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Commits on Oct 19, 2020

  1. Merge pull request IQSS#76 from IQSS/develop

    Update from IQSS develop
    lubitchv authored Oct 19, 2020
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  3. add logs for publishing

    lubitchv committed Oct 19, 2020
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  4. Removr SiteMapUtilTest

    lubitchv committed Oct 19, 2020
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Commits on Oct 20, 2020

  1. MD5 checksum

    lubitchv committed Oct 20, 2020
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Commits on Oct 21, 2020

  1. add back SiteMap test

    lubitchv committed Oct 21, 2020
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Commits on Oct 22, 2020

  1. New checksum test

    lubitchv committed Oct 22, 2020
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  2. New checksum test 2

    lubitchv committed Oct 22, 2020
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  3. Storage locatioin test

    lubitchv committed Oct 22, 2020
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  4. Storage locatioin test 3

    lubitchv committed Oct 22, 2020
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  5. Storage locatioin test 4

    lubitchv committed Oct 22, 2020
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  6. s3 input stream test

    lubitchv committed Oct 22, 2020
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  7. test

    lubitchv committed Oct 22, 2020
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  8. test

    lubitchv committed Oct 22, 2020
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  9. test

    lubitchv committed Oct 22, 2020
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  10. test

    lubitchv committed Oct 22, 2020
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  11. test

    lubitchv committed Oct 22, 2020
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Commits on Oct 23, 2020

  1. add logs

    lubitchv committed Oct 23, 2020
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  2. publishing globus not minor

    lubitchv committed Oct 23, 2020
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  3. add message

    lubitchv committed Oct 23, 2020
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  4. remove message

    lubitchv committed Oct 23, 2020
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Commits on Nov 26, 2020

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Commits on Nov 30, 2020

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  2. Merge pull request IQSS#78 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    Jayanthy develop globus phase2
    JayanthyChengan authored Nov 30, 2020
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Commits on Dec 22, 2020

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  2. Merge pull request IQSS#79 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    GlobusAPI call refactored
    JayanthyChengan authored Dec 22, 2020
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Commits on Jan 4, 2021

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  2. Merge pull request IQSS#80 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    DAT353 - removed hardcoded credential information
    JayanthyChengan authored Jan 4, 2021
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  4. Merge pull request IQSS#81 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    correction to api/datasets/$id/add call
    JayanthyChengan authored Jan 4, 2021
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  7. Merge pull request IQSS#82 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    Jayanthy develop globus phase2
    JayanthyChengan authored Jan 4, 2021
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Commits on Jan 5, 2021

  1. calculate mimeType

    JayanthyChengan committed Jan 5, 2021
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  3. Merge pull request IQSS#83 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    Jayanthy develop globus phase2
    JayanthyChengan authored Jan 5, 2021
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  4. dataset lock issue while submitting multiple files to datasets/:persi…

    …stentid/add api - Debugging
    JayanthyChengan committed Jan 5, 2021
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Commits on Jan 12, 2021

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  2. Merge pull request IQSS#84 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    Jayanthy develop globus phase2
    JayanthyChengan authored Jan 12, 2021
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  4. Merge pull request IQSS#85 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    restructured the API response object
    JayanthyChengan authored Jan 12, 2021
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Commits on Jan 18, 2021

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  2. Merge pull request IQSS#86 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    moved the globus api into Datasets.java
    JayanthyChengan authored Jan 18, 2021
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Commits on Jan 19, 2021

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  2. Merge pull request IQSS#87 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    multiple files lock issue resolved
    JayanthyChengan authored Jan 19, 2021
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  4. Merge pull request IQSS#88 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    debugging - ingest process during globus API call
    JayanthyChengan authored Jan 19, 2021
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Commits on Jan 20, 2021

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  2. Merge pull request IQSS#89 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    correction to globusAPI
    JayanthyChengan authored Jan 20, 2021
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Commits on Jan 26, 2021

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  2. Merge pull request IQSS#90 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    fix for mimetype calculation
    JayanthyChengan authored Jan 26, 2021
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Commits on Feb 1, 2021

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  2. Merge pull request IQSS#91 from scholarsportal/Jayanthy-develop-globu…

    …s-phase2
    
    - add lock to the dataset page when the Globus API call is executing.
    JayanthyChengan authored Feb 1, 2021
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Commits on Feb 10, 2021

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Commits on Feb 11, 2021

  1. debug 1

    JayanthyChengan committed Feb 11, 2021
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Commits on Feb 16, 2021

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Commits on Feb 17, 2021

  1. Merge remote-tracking branch 'Remote/develop' into sp-globus-api

    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/dataaccess/S3AccessIO.java
    JayanthyChengan committed Feb 17, 2021
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  3. Merge remote-tracking branch 'origin/sp-globus-api' into develop-glob…

    …us-phase2
    
    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/EditDatafilesPage.java
    #	src/main/java/edu/harvard/iq/dataverse/FileDownloadHelper.java
    #	src/main/java/edu/harvard/iq/dataverse/api/Datasets.java
    #	src/main/java/edu/harvard/iq/dataverse/dataaccess/FileAccessIO.java
    #	src/main/java/edu/harvard/iq/dataverse/dataaccess/S3AccessIO.java
    #	src/main/java/edu/harvard/iq/dataverse/dataaccess/SwiftAccessIO.java
    #	src/main/java/edu/harvard/iq/dataverse/datasetutility/AddReplaceFileHelper.java
    #	src/main/java/edu/harvard/iq/dataverse/globus/GlobusServiceBean.java
    #	src/main/resources/db/migration/V1__flyway_schema_baseline.sql
    #	src/main/webapp/editFilesFragment.xhtml
    #	src/main/webapp/file-download-button-fragment.xhtml
    JayanthyChengan committed Feb 17, 2021
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Commits on Feb 18, 2021

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Commits on Mar 1, 2021

  1. sql scripts

    JayanthyChengan committed Mar 1, 2021
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  2. Merge remote-tracking branch 'Remote/develop' into develop-globus-pha…

    …se2.1
    
    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/PermissionServiceBean.java
    JayanthyChengan committed Mar 1, 2021
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Commits on Mar 16, 2021

  1. Globus API upgrade

    JayanthyChengan committed Mar 16, 2021
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Commits on Mar 18, 2021

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Commits on Mar 19, 2021

  1. - tweak datasetlock,

    - skip checksum validation using dataset category
    JayanthyChengan committed Mar 19, 2021
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Commits on Mar 24, 2021

  1. - tweak datasetlock,

    - skip checksum validation using dataset category
    JayanthyChengan committed Mar 24, 2021
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Commits on Mar 29, 2021

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Commits on Mar 30, 2021

  1. - added GLOBUSUPLOADSUCCESS notification type and user notification m…

    …essages
    
    - added deleteRule api
    -
    JayanthyChengan committed Mar 30, 2021
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Commits on Mar 31, 2021

  1. Merge remote-tracking branch 'Remote/develop' into develop-globus-pha…

    …se2.1
    
    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/DatasetPage.java
    #	src/main/java/edu/harvard/iq/dataverse/UserNotification.java
    #	src/main/java/edu/harvard/iq/dataverse/api/Datasets.java
    
    And
    - mimetype DataFileServiceBean.MIME_TYPE_GLOBUS_FILE and its logic is removed
    JayanthyChengan committed Mar 31, 2021
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  2. corrected error

    JayanthyChengan committed Mar 31, 2021
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Commits on Apr 1, 2021

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Commits on Apr 8, 2021

  1. correction to verify ruleID existence, added ChecksumDatasetSizeLimit…

    … and ChecksumFileSizeLimit settings
    JayanthyChengan committed Apr 8, 2021
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Commits on Apr 9, 2021

  1. Merge remote-tracking branch 'Remote/develop' into develop-globus-pha…

    …se2.1
    
    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/DatasetPage.java
    #	src/main/java/edu/harvard/iq/dataverse/DatasetServiceBean.java
    #	src/main/java/edu/harvard/iq/dataverse/settings/SettingsServiceBean.java
    JayanthyChengan committed Apr 9, 2021
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Commits on Apr 19, 2021

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  2. Merge remote-tracking branch 'Remote/develop' into develop-globus-pha…

    …se2.1
    
    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/datasetutility/AddReplaceFileHelper.java
    JayanthyChengan committed Apr 19, 2021
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Commits on Apr 20, 2021

  1. update

    JayanthyChengan committed Apr 20, 2021
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Commits on Apr 26, 2021

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Commits on Aug 24, 2021

  1. Merge remote-tracking branch 'SP/develop' into develop-globus-phase2.1

    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/DatasetPage.java
    #	src/main/java/edu/harvard/iq/dataverse/DatasetServiceBean.java
    #	src/main/java/edu/harvard/iq/dataverse/api/Datasets.java
    #	src/main/java/edu/harvard/iq/dataverse/dataset/DatasetUtil.java
    #	src/main/java/edu/harvard/iq/dataverse/datasetutility/AddReplaceFileHelper.java
    #	src/main/java/edu/harvard/iq/dataverse/ingest/IngestUtil.java
    #	src/main/java/edu/harvard/iq/dataverse/settings/SettingsServiceBean.java
    JayanthyChengan committed Aug 24, 2021
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  2. Merge branch '8043-skip-checksum-if-overlimit' into develop-globus-ph…

    …ase2.1
    
    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/engine/command/impl/FinalizeDatasetPublicationCommand.java
    #	src/main/java/edu/harvard/iq/dataverse/settings/SettingsServiceBean.java
    JayanthyChengan committed Aug 24, 2021
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  4. -

    JayanthyChengan committed Aug 24, 2021
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  5. -

    JayanthyChengan committed Aug 24, 2021
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Commits on Aug 25, 2021

  1. -

    JayanthyChengan committed Aug 25, 2021
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Commits on Sep 8, 2021

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Commits on Feb 3, 2022

  1. Merge branch 'develop' into develop-globus-phase2.1

    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/DatasetPage.java
    #	src/main/java/edu/harvard/iq/dataverse/UserNotification.java
    #	src/main/java/edu/harvard/iq/dataverse/api/Datasets.java
    #	src/main/java/edu/harvard/iq/dataverse/util/json/JsonPrinter.java
    JayanthyChengan committed Feb 3, 2022
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  2. Merge remote-tracking branch 'origin/develop' into develop-globus-pha…

    …se2.1
    
    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/DatasetPage.java
    #	src/main/java/edu/harvard/iq/dataverse/api/Datasets.java
    #	src/main/java/edu/harvard/iq/dataverse/util/json/JsonPrinter.java
    JayanthyChengan committed Feb 3, 2022
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  3. Merge branch 'develop' into develop-globus-phase2.1

    # Conflicts:
    #	src/main/java/edu/harvard/iq/dataverse/DatasetPage.java
    #	src/main/java/edu/harvard/iq/dataverse/UserNotification.java
    #	src/main/java/edu/harvard/iq/dataverse/api/Datasets.java
    #	src/main/java/edu/harvard/iq/dataverse/util/json/JsonPrinter.java
    JayanthyChengan committed Feb 3, 2022
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  4. - removed old method

    JayanthyChengan committed Feb 3, 2022
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Commits on Feb 9, 2022

  1. -

    JayanthyChengan committed Feb 9, 2022
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Commits on Feb 10, 2022

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Commits on Mar 15, 2022

  1. Merge remote-tracking branch 'IQSS/develop' into GDCC/DC-1

    Conflicts:
    	src/main/java/edu/harvard/iq/dataverse/DatasetPage.java
    	src/main/java/edu/harvard/iq/dataverse/api/Datasets.java
    qqmyers committed Mar 15, 2022
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Commits on Mar 22, 2022

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Commits on Apr 14, 2022

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Commits on Apr 27, 2022

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Commits on Apr 29, 2022

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Commits on May 10, 2022

  1. typos

    qqmyers committed May 10, 2022
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Commits on May 19, 2022

  1. logging, todos

    qqmyers committed May 19, 2022
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Commits on Jun 6, 2022

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Commits on Jun 7, 2022

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  4. cleanup

    qqmyers committed Jun 7, 2022
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  6. potential fix for IQSS#8781

    qqmyers committed Jun 7, 2022
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Commits on Jun 8, 2022

  1. get effective store

    qqmyers committed Jun 8, 2022
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Commits on Jun 10, 2022

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Commits on Jun 13, 2022

  1. update warning text

    qqmyers committed Jun 13, 2022
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Commits on Jun 20, 2022

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Commits on Jun 21, 2022

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  2. add globus icon

    qqmyers committed Jun 21, 2022
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  3. adjust comment

    qqmyers committed Jun 21, 2022
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Commits on Jun 24, 2022

  1. message fix

    qqmyers committed Jun 24, 2022
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  2. drop debug logging

    qqmyers committed Jun 24, 2022
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  4. move globus calls to globus bean, doc Lock issue, cleaunup

    Added note w.r.t. the GlobusUpload lock only being removed from the db
    prior to the completion of the globusUpload method because we're calling
    the removeDatasetLock method in another bean.
    qqmyers committed Jun 24, 2022
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  7. cleanup

    qqmyers committed Jun 24, 2022
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Commits on Jun 29, 2022

  1. fix logger name

    qqmyers committed Jun 29, 2022
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  3. initial test to add GT option

    qqmyers committed Jun 29, 2022
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Commits on Jul 1, 2022

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  3. add logging

    qqmyers committed Jul 1, 2022
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  4. i18n download, use icon

    qqmyers committed Jul 1, 2022
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Commits on Jul 5, 2022

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Commits on Jul 8, 2022

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Commits on Jul 25, 2022

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Commits on Jul 26, 2022

  1. merge issue

    qqmyers committed Jul 26, 2022
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Commits on Jul 28, 2022

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Commits on Aug 3, 2022

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Commits on Aug 5, 2022

  1. Apply suggestions from code review

    Co-authored-by: Philip Durbin <philipdurbin@gmail.com>
    qqmyers and pdurbin committed Aug 5, 2022
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  2. switch to hyphens per review

    qqmyers committed Aug 5, 2022
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  5. update secret-key, cleanup

    qqmyers committed Aug 5, 2022
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  10. per reviewDog

    qqmyers committed Aug 5, 2022
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  11. remove unused imports

    qqmyers committed Aug 5, 2022
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  12. add links

    qqmyers committed Aug 5, 2022
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  13. partial update

    qqmyers committed Aug 5, 2022
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  14. add some validation and test

    qqmyers committed Aug 5, 2022
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  15. remote store docs

    qqmyers committed Aug 5, 2022
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  16. typo in method name

    qqmyers committed Aug 5, 2022
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Commits on Aug 8, 2022

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  5. also fix typo in xhtml

    qqmyers committed Aug 8, 2022
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Commits on Aug 9, 2022

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Commits on Aug 12, 2022

  1. globus guide docs

    qqmyers committed Aug 12, 2022
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Commits on Aug 16, 2022

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Commits on Aug 17, 2022

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  2. typo

    qqmyers committed Aug 17, 2022
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Commits on Aug 18, 2022

  1. Add test for bad remote URLs

    qqmyers committed Aug 18, 2022
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  2. note re 404 URLs

    qqmyers committed Aug 18, 2022
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Commits on Aug 29, 2022

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Commits on Aug 30, 2022

  1. handle null mimetype

    qqmyers committed Aug 30, 2022
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Commits on Sep 2, 2022

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Commits on Sep 14, 2022

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  4. alter download info

    qqmyers committed Sep 14, 2022
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  6. Apply suggestions from code review

    Co-authored-by: Philip Durbin <philipdurbin@gmail.com>
    qqmyers and pdurbin authored Sep 14, 2022
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  8. Merge branch 'develop' into GDCC/DC-1 IQSS#8891

    Conflicts (keep isValidIdentifier):
    src/main/java/edu/harvard/iq/dataverse/dataaccess/S3AccessIO.java
    pdurbin committed Sep 14, 2022
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  9. refactor per qa

    qqmyers committed Sep 14, 2022
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  12. message/email tweaks

    qqmyers committed Sep 14, 2022
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Commits on Sep 15, 2022

  1. cut/paste error

    qqmyers committed Sep 15, 2022
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  2. fix Boolean conversion

    qqmyers committed Sep 15, 2022
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Commits on Sep 16, 2022

  1. simplify messages

    qqmyers committed Sep 16, 2022
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  3. fix bullets IQSS#8891

    pdurbin committed Sep 16, 2022
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  4. doc suggestions IQSS#8891

    pdurbin committed Sep 16, 2022
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Commits on Sep 19, 2022

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