From ee50c170667ff85858807237fecb06de69c117ac Mon Sep 17 00:00:00 2001 From: mihai-sysbio Date: Tue, 14 Mar 2023 11:30:11 +0000 Subject: [PATCH] update validation results for SysBioChalmers/Human-GEM --- results/SysBioChalmers_Human-GEM.json | 269 +------------------------- 1 file changed, 10 insertions(+), 259 deletions(-) diff --git a/results/SysBioChalmers_Human-GEM.json b/results/SysBioChalmers_Human-GEM.json index 57838a3..f0d08dc 100644 --- a/results/SysBioChalmers_Human-GEM.json +++ b/results/SysBioChalmers_Human-GEM.json @@ -4,285 +4,36 @@ "v1.14.0": { "standard-GEM": [ { - "0.4": true + "0.5": true }, { "test_results": { - "cobrapy-load": { + "cobrapy-load-json": { "0.26.2": false, - "errors": "\"Error -3 while decompressing data: incorrect header check\"" + "errors": "\"[Errno 2] No such file or directory: 'Human-GEM.json'\"" }, - "cobrapy-validate-sbml": { - "0.26.2": false, - "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" - }, - "memote-score": { - "0.13.0": 0.0, - "errors": "" - }, - "yamllint": { - "1.29.0": "True", - "errors": [] - } - } - } - ] - } - }, - { - "v1.13.0": { - "standard-GEM": [ - { - "0.4": true - }, - { - "test_results": { - "cobrapy-load": { + "cobrapy-load-matlab": { "0.26.2": false, "errors": "\"Error -3 while decompressing data: incorrect header check\"" }, - "cobrapy-validate-sbml": { - "0.26.2": false, - "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" - }, - "memote-score": { - "0.13.0": 0.0, + "cobrapy-load-sbml": { + "0.26.2": true, "errors": "" }, - "yamllint": { - "1.29.0": "True", - "errors": [] - } - } - } - ] - } - }, - { - "v1.12.0": { - "standard-GEM": [ - { - "0.4": true - }, - { - "test_results": { - "cobrapy-load": { - "0.26.2": false, - "errors": "\"Error -3 while decompressing data: incorrect header check\"" - }, - "cobrapy-validate-sbml": { - "0.26.2": false, - "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" - }, - "memote-score": { - "0.13.0": 0.0, + "cobrapy-load-yaml": { + "0.26.2": true, "errors": "" }, - "yamllint": { - "1.29.0": "True", - "errors": [] - } - } - } - ] - } - }, - { - "v1.11.0": { - "standard-GEM": [ - { - "0.4": true - }, - { - "test_results": { - "cobrapy-load": { - "0.26.2": false, - "errors": "\"Error -3 while decompressing data: incorrect header check\"" - }, - "cobrapy-validate-sbml": { - "0.26.2": false, - "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" - }, - "memote-score": { - "0.13.0": 0.0, - "errors": "" - }, - "yamllint": { - "1.29.0": "True", - "errors": [] - } - } - } - ] - } - }, - { - "v1.10.0": { - "standard-GEM": [ - { - "0.4": true - }, - { - "test_results": { - "cobrapy-load": { - "0.26.2": false, - "errors": "\"Error -3 while decompressing data: incorrect header check\"" - }, - "cobrapy-validate-sbml": { - "0.26.2": false, - "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" - }, - "memote-score": { - "0.13.0": 0.0, - "errors": "" - }, - "yamllint": { - "1.29.0": "True", - "errors": [] - } - } - } - ] - } - }, - { - "v1.9.0": { - "standard-GEM": [ - { - "0.4": true - }, - { - "test_results": { - "cobrapy-load": { - "0.26.2": false, - "errors": "\"Error -3 while decompressing data: incorrect header check\"" - }, - "cobrapy-validate-sbml": { - "0.26.2": false, - "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" - }, - "memote-score": { - "0.13.0": 0.0, - "errors": "" - }, - "yamllint": { - "1.29.0": "True", - "errors": [] - } - } - } - ] - } - }, - { - "v1.8.0": { - "standard-GEM": [ - { - "0.4": true - }, - { - "test_results": { - "cobrapy-load": { - "0.26.2": false, - "errors": "\"Error -3 while decompressing data: incorrect header check\"" - }, - "cobrapy-validate-sbml": { - "0.26.2": false, - "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" - }, - "memote-score": { - "0.13.0": 0.0, - "errors": "" - }, - "yamllint": { - "1.29.0": "True", - "errors": [] - } - } - } - ] - } - }, - { - "v1.7.0": { - "standard-GEM": [ - { - "0.4": true - }, - { - "test_results": { - "cobrapy-load": { - "0.26.2": false, - "errors": "\"Error -3 while decompressing data: incorrect header check\"" - }, - "cobrapy-validate-sbml": { - "0.26.2": false, - "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" - }, - "memote-score": { - "0.13.0": 0.0, - "errors": "" - }, - "yamllint": { - "1.29.0": "True", - "errors": [] - } - } - } - ] - } - }, - { - "v1.6.0": { - "standard-GEM": [ - { - "0.4": true - }, - { - "test_results": { - "cobrapy-load": { - "0.26.2": false, - "errors": "\"Error -3 while decompressing data: incorrect header check\"" - }, - "cobrapy-validate-sbml": { - "0.26.2": false, - "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" - }, - "memote-score": { - "0.13.0": 0.0, - "errors": "" - }, - "yamllint": { - "1.29.0": "True", - "errors": [] - } - } - } - ] - } - }, - { - "v1.5.0": { - "standard-GEM": [ - { - "0.4": true - }, - { - "test_results": { - "cobrapy-load": { - "0.26.2": false, - "errors": "\"Error -3 while decompressing data: incorrect header check\"" - }, "cobrapy-validate-sbml": { "0.26.2": false, "errors": "\"{'SBML_FATAL': [], 'SBML_ERROR': [], 'SBML_SCHEMA_ERROR': [], 'SBML_WARNING': ['E0 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n', 'E1 (Warning): General SBML conformance (core, L3); RDF does not contain valid ModelHistory; LibSBML expected to read the annotation into a ModelHistory object. Unfortunately, some attributes were not present or correct and the resulting ModelHistory object will not correctly produce the annotation. This functionality will be improved in later versions of libSBML. \\\\nReference: L3V1 Section 6.3\\\\n An invalid ModelHistory element has been stored.\\\\n'], 'COBRA_FATAL': [], 'COBRA_ERROR': [], 'COBRA_WARNING': [], 'COBRA_CHECK': []}\"" }, "memote-score": { - "0.13.0": 0.0, + "0.13.0": 0.4740305818784403, "errors": "" }, "yamllint": { - "1.29.0": "True", + "1.29.0": true, "errors": [] } }