From 019295e5b5ed83bb3381fdba8041eeb5db946a5d Mon Sep 17 00:00:00 2001 From: Ugur Bayindir Date: Thu, 5 May 2022 10:46:35 +0100 Subject: [PATCH 1/5] docker-practice/actions-setup-docker@1.0.8 try-out --- .github/workflows/subset_report.yml | 21 +++++++++++++++------ 1 file changed, 15 insertions(+), 6 deletions(-) diff --git a/.github/workflows/subset_report.yml b/.github/workflows/subset_report.yml index cf132ea0aa..11fa1650a2 100644 --- a/.github/workflows/subset_report.yml +++ b/.github/workflows/subset_report.yml @@ -12,12 +12,6 @@ jobs: runs-on: macos-latest # container: obolibrary/odkfull:latest steps: - - uses: docker-practice/actions-setup-docker@master - - run: | - set -x - docker version - - name: Install ODK - run: docker pull obolibrary/odklite # Checks-out current branch - uses: actions/checkout@v2 # Checks-out master and prepare git diff report @@ -36,6 +30,21 @@ jobs: run: | echo Taxon constraint updates do not exist echo "STATUS=0" >> $GITHUB_ENV + - uses: docker-practice/actions-setup-docker@1.0.8 + if: env.STATUS == 1 + - name: docker test + if: env.STATUS == 1 + run: | + set -x + docker version + - run: | + set -x + docker version + - name: Install ODK + if: env.STATUS == 1 + run: docker pull obolibrary/odklite + - name: check path + run: pwd # Checks-out master branch under "master" directory - uses: actions/checkout@v2 if: env.STATUS == 1 From 6c9e82779b5c54d82ef2a61f3b41152c078bddae Mon Sep 17 00:00:00 2001 From: Ugur Bayindir Date: Thu, 5 May 2022 11:26:48 +0100 Subject: [PATCH 2/5] test --- src/ontology/uberon-edit.obo | 2 -- 1 file changed, 2 deletions(-) diff --git a/src/ontology/uberon-edit.obo b/src/ontology/uberon-edit.obo index 6f1b7fc2d3..6356152070 100644 --- a/src/ontology/uberon-edit.obo +++ b/src/ontology/uberon-edit.obo @@ -287,7 +287,6 @@ intersection_of: UBERON:0000161 ! orifice intersection_of: connects UBERON:0001707 ! nasal cavity intersection_of: part_of UBERON:0005725 ! olfactory system relationship: in_lateral_side_of UBERON:0000033 {gci_relation="part_of", gci_filler="NCBITaxon:7776", notes="hagfish have median nostril"} ! head -relationship: only_in_taxon NCBITaxon:7711 ! Chordata relationship: part_of UBERON:0000033 {source="ZFA"} ! head property_value: external_definition "One of paired external openings of the nasal chamber.[AAO]" xsd:string {date_retrieved="2012-06-20", external_class="AAO:0000311", ontology="AAO", source="AAO:EJS"} property_value: external_ontology_notes "we have classified this as an orifice, according to FMA. Note that in FMA, orifices are immaterial entities, but in ZFA this is a surface structure" xsd:string {external_ontology="FMA"} @@ -225231,4 +225230,3 @@ xref: UBPROP:0000107 property_value: is_count_of UBERON:0002412 property_value: preceding_element_is BSPO:0000096 is_metadata_tag: true - From 0349b77cf58aef1c3993d40d185af5f567c9da1d Mon Sep 17 00:00:00 2001 From: Ugur Bayindir Date: Fri, 6 May 2022 14:40:03 +0100 Subject: [PATCH 3/5] Version of docker-practice/actions-setup-docker set to v1 --- .github/workflows/diff.yml | 5 +++-- .github/workflows/subset_report.yml | 22 +++++++--------------- 2 files changed, 10 insertions(+), 17 deletions(-) diff --git a/.github/workflows/diff.yml b/.github/workflows/diff.yml index e41018cad4..8d3c30c05f 100644 --- a/.github/workflows/diff.yml +++ b/.github/workflows/diff.yml @@ -15,8 +15,9 @@ jobs: diff-reports: runs-on: macos-latest steps: - - uses: docker-practice/actions-setup-docker@master - - run: | + - uses: docker-practice/actions-setup-docker@v1 + - name: docker test + run: | set -x docker version - name: Install ODK diff --git a/.github/workflows/subset_report.yml b/.github/workflows/subset_report.yml index 11fa1650a2..17ad8074e7 100644 --- a/.github/workflows/subset_report.yml +++ b/.github/workflows/subset_report.yml @@ -12,6 +12,13 @@ jobs: runs-on: macos-latest # container: obolibrary/odkfull:latest steps: + - uses: docker-practice/actions-setup-docker@v1 + - name: docker test + run: | + set -x + docker version + - name: Install ODK + run: docker pull obolibrary/odklite # Checks-out current branch - uses: actions/checkout@v2 # Checks-out master and prepare git diff report @@ -30,21 +37,6 @@ jobs: run: | echo Taxon constraint updates do not exist echo "STATUS=0" >> $GITHUB_ENV - - uses: docker-practice/actions-setup-docker@1.0.8 - if: env.STATUS == 1 - - name: docker test - if: env.STATUS == 1 - run: | - set -x - docker version - - run: | - set -x - docker version - - name: Install ODK - if: env.STATUS == 1 - run: docker pull obolibrary/odklite - - name: check path - run: pwd # Checks-out master branch under "master" directory - uses: actions/checkout@v2 if: env.STATUS == 1 From 319fe197c07b1a897b93b01a9c9e6443a61a9f2c Mon Sep 17 00:00:00 2001 From: Ugur Bayindir Date: Wed, 11 May 2022 08:53:50 +0100 Subject: [PATCH 4/5] edit test --- src/ontology/uberon-edit.obo | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/uberon-edit.obo b/src/ontology/uberon-edit.obo index 6356152070..42be8bceeb 100644 --- a/src/ontology/uberon-edit.obo +++ b/src/ontology/uberon-edit.obo @@ -895,7 +895,7 @@ property_value: editor_note "Mammary glands develop by similar mechanisms, and t [Term] id: UBERON:0000022 name: feather -def: "One of the epidermal growths that form the distinctive outer covering, or plumage, on birds. Feathers are formed in tiny follicles in the epidermis, or outer skin layer, that produce keratin proteins." [Wikipedia:Feather] +def: "XOne of the epidermal growths that form the distinctive outer covering, or plumage, on birds. Feathers are formed in tiny follicles in the epidermis, or outer skin layer, that produce keratin proteins." [Wikipedia:Feather] subset: efo_slim subset: uberon_slim xref: BTO:0000447 From 1cad7f8227c9198c8fc218a9010934aafec537c0 Mon Sep 17 00:00:00 2001 From: Ugur Bayindir Date: Wed, 11 May 2022 08:54:31 +0100 Subject: [PATCH 5/5] revert edit test --- src/ontology/uberon-edit.obo | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/ontology/uberon-edit.obo b/src/ontology/uberon-edit.obo index 42be8bceeb..6356152070 100644 --- a/src/ontology/uberon-edit.obo +++ b/src/ontology/uberon-edit.obo @@ -895,7 +895,7 @@ property_value: editor_note "Mammary glands develop by similar mechanisms, and t [Term] id: UBERON:0000022 name: feather -def: "XOne of the epidermal growths that form the distinctive outer covering, or plumage, on birds. Feathers are formed in tiny follicles in the epidermis, or outer skin layer, that produce keratin proteins." [Wikipedia:Feather] +def: "One of the epidermal growths that form the distinctive outer covering, or plumage, on birds. Feathers are formed in tiny follicles in the epidermis, or outer skin layer, that produce keratin proteins." [Wikipedia:Feather] subset: efo_slim subset: uberon_slim xref: BTO:0000447