From bc33a019a9edecda77583963c7563e005bb3fe07 Mon Sep 17 00:00:00 2001
From: Jonathan Bauer <bauer@cs.uni-freiburg.de>
Date: Tue, 18 Mar 2025 16:24:41 +0000
Subject: [PATCH] Results for commit: 1a41155e6f7fab279f2ef4c7ebeeef6887e76bdd
---
.../arc_specification@2.0.0-draft/badge.svg | 23 +++++++++++++++++++
.../validation_report.xml | 1 +
.../validation_summary.json | 1 +
docker-dependencies/invenio@2.1.0/badge.svg | 23 +++++++++++++++++++
.../invenio@2.1.0/validation_report.xml | 1 +
.../invenio@2.1.0/validation_summary.json | 1 +
.../plant-growth@1.0.0/badge.svg | 23 +++++++++++++++++++
.../plant-growth@1.0.0/validation_report.xml | 1 +
.../validation_summary.json | 1 +
9 files changed, 75 insertions(+)
create mode 100644 docker-dependencies/arc_specification@2.0.0-draft/badge.svg
create mode 100644 docker-dependencies/arc_specification@2.0.0-draft/validation_report.xml
create mode 100644 docker-dependencies/arc_specification@2.0.0-draft/validation_summary.json
create mode 100644 docker-dependencies/invenio@2.1.0/badge.svg
create mode 100644 docker-dependencies/invenio@2.1.0/validation_report.xml
create mode 100644 docker-dependencies/invenio@2.1.0/validation_summary.json
create mode 100644 docker-dependencies/plant-growth@1.0.0/badge.svg
create mode 100644 docker-dependencies/plant-growth@1.0.0/validation_report.xml
create mode 100644 docker-dependencies/plant-growth@1.0.0/validation_summary.json
diff --git a/docker-dependencies/arc_specification@2.0.0-draft/badge.svg b/docker-dependencies/arc_specification@2.0.0-draft/badge.svg
new file mode 100644
index 0000000..46b58da
--- /dev/null
+++ b/docker-dependencies/arc_specification@2.0.0-draft/badge.svg
@@ -0,0 +1,23 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<svg xmlns="http://www.w3.org/2000/svg" width="300" height="20">
+ <linearGradient id="b" x2="0" y2="100%">
+ <stop offset="0" stop-color="#bbb" stop-opacity=".1"/>
+ <stop offset="1" stop-opacity=".1"/>
+ </linearGradient>
+ <mask id="1">
+ <rect width="300" height="20" rx="3" fill="#fff"/>
+ </mask>
+ <g mask="url(#1)">
+ <path fill="#555" d="M0 0h192v20H0z"/>
+ <path fill="#E05D44" d="M192 0h108v20H192z"/>
+ <path fill="url(#b)" d="M0 0h300v20H0z"/>
+ </g>
+ <g fill="#fff" text-anchor="middle" font-family="DejaVu Sans,Verdana,Geneva,sans-serif" font-size="11">
+ <text x="97" y="15" fill="#010101" fill-opacity=".3">arc_specification@2.0.0-draft</text>
+ <text x="96" y="14">arc_specification@2.0.0-draft</text>
+ </g>
+ <g fill="#fff" text-anchor="middle" font-family="DejaVu Sans,Verdana,Geneva,sans-serif" font-size="11">
+ <text x="247" y="15" fill="#010101" fill-opacity=".3">1 Critical Errors</text>
+ <text x="246" y="14">1 Critical Errors</text>
+ </g>
+</svg>
diff --git a/docker-dependencies/arc_specification@2.0.0-draft/validation_report.xml b/docker-dependencies/arc_specification@2.0.0-draft/validation_report.xml
new file mode 100644
index 0000000..5f2478b
--- /dev/null
+++ b/docker-dependencies/arc_specification@2.0.0-draft/validation_report.xml
@@ -0,0 +1 @@
+<?xml version="1.0" encoding="utf-8"?><testsuites><testsuite name="arc-validate"><testcase name="[ Critical; Arc contains all files linked in studies ]" time="0.035"><failure message="The value 'assays/Talinum_RNASeq_minimal/isa.assay.xlsx' does not exist" /></testcase><testcase name="[ Critical; Arc contains study in studies directory ]" time="0.087" /><testcase name="[ Critical; Arc is free of falesly parsed process graph headers in assays ]" time="0.087" /><testcase name="[ Critical; Arc contains assay in assay directory ]" time="0.078" /><testcase name="[ Critical; Arc is free of falesly parsed process graph headers in studies ]" time="0.063" /><testcase name="[ Critical; Arc contains workflow in workflow directory ]" time="0.039" /><testcase name="[ Critical; Arc contains investigation file ]" time="0.022" /><testcase name="[ Critical; Arc contains Assays Directory ]" time="0.011" /><testcase name="[ Critical; Arc contains Workflows Directory ]" time="0.011" /><testcase name="[ Critical; Arc contains Studies Directory ]" time="0.007" /><testcase name="[ Critical; Arc contains Runs Directory ]" time="0.007" /><testcase name="[ Critical; Arc contains all needed Investigation Metadata fields ]" time="0.007" /><testcase name="[ Critical; Arc contains all needed Study Metadata fields ]" time="0.002" /><testcase name="[ Critical; Arc contains all needed Assay Metadata fields ]" time="0.002" /><testcase name="[ Critical; Arc contains Investigation optional Metadata fields ]" time="0.002" /><testcase name="[ Critical; Arc contains Study optional Metadata fields ]" time="0.002" /><testcase name="[ Critical; Arc contains all files linked in investigation ]" time="0.000" /></testsuite></testsuites>
\ No newline at end of file
diff --git a/docker-dependencies/arc_specification@2.0.0-draft/validation_summary.json b/docker-dependencies/arc_specification@2.0.0-draft/validation_summary.json
new file mode 100644
index 0000000..b0a4969
--- /dev/null
+++ b/docker-dependencies/arc_specification@2.0.0-draft/validation_summary.json
@@ -0,0 +1 @@
+{"Critical":{"HasFailures":true,"Total":17,"Passed":16,"Failed":1,"Errored":0},"NonCritical":{"HasFailures":false,"Total":0,"Passed":0,"Failed":0,"Errored":0},"ValidationPackage":{"Name":"arc_specification","Version":"2.0.0-draft","Summary":"Validate whether an ARC conforms to Specification V2.0.0-draft","Description":"Validate whether an ARC conforms to Specification V2.0.0-draft. See the relevant spec at https://github.com/nfdi4plants/ARC-specification/blob/v2.0.0/ARC%20specification.md"}}
\ No newline at end of file
diff --git a/docker-dependencies/invenio@2.1.0/badge.svg b/docker-dependencies/invenio@2.1.0/badge.svg
new file mode 100644
index 0000000..28088d3
--- /dev/null
+++ b/docker-dependencies/invenio@2.1.0/badge.svg
@@ -0,0 +1,23 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<svg xmlns="http://www.w3.org/2000/svg" width="137" height="20">
+ <linearGradient id="b" x2="0" y2="100%">
+ <stop offset="0" stop-color="#bbb" stop-opacity=".1"/>
+ <stop offset="1" stop-opacity=".1"/>
+ </linearGradient>
+ <mask id="1">
+ <rect width="137" height="20" rx="3" fill="#fff"/>
+ </mask>
+ <g mask="url(#1)">
+ <path fill="#555" d="M0 0h94v20H0z"/>
+ <path fill="#4C1" d="M94 0h43v20H94z"/>
+ <path fill="url(#b)" d="M0 0h137v20H0z"/>
+ </g>
+ <g fill="#fff" text-anchor="middle" font-family="DejaVu Sans,Verdana,Geneva,sans-serif" font-size="11">
+ <text x="48" y="15" fill="#010101" fill-opacity=".3">invenio@2.1.0</text>
+ <text x="47" y="14">invenio@2.1.0</text>
+ </g>
+ <g fill="#fff" text-anchor="middle" font-family="DejaVu Sans,Verdana,Geneva,sans-serif" font-size="11">
+ <text x="116.5" y="15" fill="#010101" fill-opacity=".3">10/10</text>
+ <text x="115.5" y="14">10/10</text>
+ </g>
+</svg>
diff --git a/docker-dependencies/invenio@2.1.0/validation_report.xml b/docker-dependencies/invenio@2.1.0/validation_report.xml
new file mode 100644
index 0000000..2166caa
--- /dev/null
+++ b/docker-dependencies/invenio@2.1.0/validation_report.xml
@@ -0,0 +1 @@
+<?xml version="1.0" encoding="utf-8"?><testsuites><testsuite name="fsi"><testcase name="[ Critical; INVESTIGATION; Investigation Title ]" time="0.004" /><testcase name="[ Critical; INVESTIGATION; Investigation Description ]" time="0.004" /><testcase name="[ Critical; INVESTIGATION; Investigation Person First Name exists ]" time="0.004" /><testcase name="[ Critical; INVESTIGATION; Investigation Person Last Name exists ]" time="0.004" /><testcase name="[ Critical; INVESTIGATION; Investigation Person Last Name is not empty ]" time="0.004" /><testcase name="[ Critical; INVESTIGATION; Investigation Person Affiliation exists ]" time="0.004" /><testcase name="[ Critical; INVESTIGATION; Investigation Person Affiliation is not empty ]" time="0.004" /><testcase name="[ Critical; INVESTIGATION; Investigation Person First Name is not empty ]" time="0.003" /><testcase name="[ Critical; INVESTIGATION; Investigation Person Email exists ]" time="0.000" /><testcase name="[ Critical; INVESTIGATION; Investigation Person Email ]" time="0.000" /></testsuite></testsuites>
\ No newline at end of file
diff --git a/docker-dependencies/invenio@2.1.0/validation_summary.json b/docker-dependencies/invenio@2.1.0/validation_summary.json
new file mode 100644
index 0000000..9f69546
--- /dev/null
+++ b/docker-dependencies/invenio@2.1.0/validation_summary.json
@@ -0,0 +1 @@
+{"Critical":{"HasFailures":false,"Total":10,"Passed":10,"Failed":0,"Errored":0},"NonCritical":{"HasFailures":false,"Total":0,"Passed":0,"Failed":0,"Errored":0},"ValidationPackage":{"Name":"invenio","Version":"2.1.0","Summary":"Validates if the ARC contains the necessary metadata to be publishable via Invenio.","Description":"Validates if the ARC contains the necessary metadata to be publishable via Invenio.\nThe following metadata is required:\n- Investigation has title and description\n- All persons in Investigation Contacts must have a name, last name, affiliation and valid email\n"}}
\ No newline at end of file
diff --git a/docker-dependencies/plant-growth@1.0.0/badge.svg b/docker-dependencies/plant-growth@1.0.0/badge.svg
new file mode 100644
index 0000000..36196e7
--- /dev/null
+++ b/docker-dependencies/plant-growth@1.0.0/badge.svg
@@ -0,0 +1,23 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<svg xmlns="http://www.w3.org/2000/svg" width="121" height="20">
+ <linearGradient id="b" x2="0" y2="100%">
+ <stop offset="0" stop-color="#bbb" stop-opacity=".1"/>
+ <stop offset="1" stop-opacity=".1"/>
+ </linearGradient>
+ <mask id="1">
+ <rect width="121" height="20" rx="3" fill="#fff"/>
+ </mask>
+ <g mask="url(#1)">
+ <path fill="#555" d="M0 0h85v20H0z"/>
+ <path fill="#4C1" d="M85 0h36v20H85z"/>
+ <path fill="url(#b)" d="M0 0h121v20H0z"/>
+ </g>
+ <g fill="#fff" text-anchor="middle" font-family="DejaVu Sans,Verdana,Geneva,sans-serif" font-size="11">
+ <text x="43.5" y="15" fill="#010101" fill-opacity=".3">plant-growth</text>
+ <text x="42.5" y="14">plant-growth</text>
+ </g>
+ <g fill="#fff" text-anchor="middle" font-family="DejaVu Sans,Verdana,Geneva,sans-serif" font-size="11">
+ <text x="104" y="15" fill="#010101" fill-opacity=".3">8/17</text>
+ <text x="103" y="14">8/17</text>
+ </g>
+</svg>
diff --git a/docker-dependencies/plant-growth@1.0.0/validation_report.xml b/docker-dependencies/plant-growth@1.0.0/validation_report.xml
new file mode 100644
index 0000000..a8e73f6
--- /dev/null
+++ b/docker-dependencies/plant-growth@1.0.0/validation_report.xml
@@ -0,0 +1 @@
+<?xml version="1.0" encoding="utf-8"?><testsuites><testsuite name="fsi"><testcase name="[ NonCritical; cases; plant_material: study type ]" time="0.003"><failure message="table contains no study type header" /></testcase><testcase name="[ NonCritical; cases; plant_material: Reference Time Point ]" time="0.003"><failure message="table contains no Reference Time Point header" /></testcase><testcase name="[ NonCritical; cases; plant_material: genotype ]" time="0.002"><failure message="table contains no genotype header" /></testcase><testcase name="[ NonCritical; cases; plant_material: growth plot design ]" time="0.002"><failure message="table contains no growth plot design header" /></testcase><testcase name="[ NonCritical; cases; plant_material: plant growth medium exposure ]" time="0.002"><failure message="table contains no plant growth medium exposure header" /></testcase><testcase name="[ NonCritical; cases; plant_material: humidity night ]" time="0.002"><failure message="table contains no humidity night header" /></testcase><testcase name="[ NonCritical; cases; plant_material: plant nutrient exposure ]" time="0.002"><failure message="table contains no plant nutrient exposure header" /></testcase><testcase name="[ NonCritical; cases; plant_material: abiotic plant exposure ]" time="0.002"><failure message="table contains no abiotic plant exposure header" /></testcase><testcase name="[ NonCritical; cases; plant_material: biotic plant exposure ]" time="0.000"><failure message="table contains no biotic plant exposure header" /></testcase><testcase name="[ Critical; cases; plant growth table ]" time="0.031" /><testcase name="[ Critical; cases; plant_material: organism ]" time="0.002" /><testcase name="[ Critical; cases; plant_material: growth day length ]" time="0.002" /><testcase name="[ Critical; cases; plant_material: light intensity exposure ]" time="0.002" /><testcase name="[ Critical; cases; plant_material: humidity day ]" time="0.002" /><testcase name="[ Critical; cases; plant_material: temperature day ]" time="0.002" /><testcase name="[ Critical; cases; plant_material: temperature night ]" time="0.002" /><testcase name="[ Critical; cases; plant_material: watering exposure ]" time="0.002" /></testsuite></testsuites>
\ No newline at end of file
diff --git a/docker-dependencies/plant-growth@1.0.0/validation_summary.json b/docker-dependencies/plant-growth@1.0.0/validation_summary.json
new file mode 100644
index 0000000..0ffb046
--- /dev/null
+++ b/docker-dependencies/plant-growth@1.0.0/validation_summary.json
@@ -0,0 +1 @@
+{"Critical":{"HasFailures":false,"Total":8,"Passed":8,"Failed":0,"Errored":0},"NonCritical":{"HasFailures":true,"Total":9,"Passed":0,"Failed":9,"Errored":0},"ValidationPackage":{"Name":"plant-growth","Version":"1.0.0","Summary":"Validates if the ARC contains the necessary metadata to describe conditions for plant growth.","Description":"Validates if the ARC contains an annotation table with protocol type \u0022Plant Growth Protocol\u0022 and if it exists, whether it contains the following fields:\n\n Critical fields:\n - organism (OBI:0100026)\n - growth day length (DPBO:0000041)\n - light intensity exposure (PECO:0007224) \n - temperature day (DPBO:0000007)\n - temperature night (DPBO:0000008) \n\n Non critical fields:\n - genotype (EFO:0000513)\n - study type (PECO:0007231)\n - Reference Time Point (NCIT:C82576)\n - growth plot design (DPBO:0000001)\n - plant growth medium exposure (PECO:0007147)\n - humidity day (DPBO:0000005)\n - humidity night (DPBO:0000006)\n - plant nutrient exposure (PECO:0007241)\n - abiotic plant exposure (PECO:0007191)\n - biotic plant exposure (PECO:0007357)\n - watering exposure (PECO:0007383)\n"}}
\ No newline at end of file
--
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