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JamesJeffryesJamesJeffryes
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Correcting orphan roles in Human and Mycobacteria templates
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+12
-9
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5 files changed

+12
-9
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‎.travis.yml

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@@ -14,7 +14,7 @@ install:
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- source activate test-environment
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- pip install keen
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script:
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- python -m Scripts.Validation.Validate_Compounds --show-details Biochemistry/compounds.tsv
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- python -m Scripts.Validation.Validate_Reactions --show-details -c Biochemistry/compounds.tsv Biochemistry/reactions.tsv
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- python -m Scripts.Validation.Validate_Templates
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- python -m Scripts.Validation.Validate_Annotations_Media
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- python -m Scripts.Validation.Validate_Annotations_Media
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- python -m Scripts.Validation.Validate_Compounds --show-details Biochemistry/compounds.tsv
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- python -m Scripts.Validation.Validate_Reactions --show-details -c Biochemistry/compounds.tsv Biochemistry/reactions.tsv

‎Annotations/Complexes.tsv

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@@ -9420,3 +9420,5 @@ cpx31186 cpx.11186 KEGG null 1.0 ftr32162;triggering;0;1
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cpx32642 cpx.12642 KEGG null 1.0 ftr30004;triggering;0;1
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cpx31267 cpx.11267 KEGG null 1.0 ftr33603;triggering;0;1
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cpx30867 cpx.10867 KEGG null 1.0 ftr31509;triggering;0;1
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cpx35755 cpx35755 KEGG null 0.0 ftr35755;triggering;0;1
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cpx32457 cpx32457 KEGG null 0.0 ftr32457;triggering;0;1

‎Annotations/Roles.tsv

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@@ -20550,3 +20550,4 @@ ftr50766 NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 PlantSEED
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ftr50767 Fatty aldehyde decarbonylase (EC 4.1.99.-) PlantSEED AT1G02205 psfr.767
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ftr50768 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) PlantSEED AT1G34430;AT1G54220;AT3G13930;AT3G25860;AT3G52200 psfr.768
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ftr50769 Photosystem II protein PsbM PlantSEED ATCG00220 psfr.769
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ftr35755 magnesium chelatase (EC 6.6.1.1) KEGG null

‎Templates/Human/Reactions.tsv

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Original file line numberDiff line numberDiff line change
@@ -4440,7 +4440,7 @@ rxn05881 c0|e0 = = conditional 5 0 -3.15127 cpx31082
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rxn05882 c0|e0 = = conditional 5 0 0.591 cpx34739
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rxn05883 c0|e0 = = conditional 5 0 -1.64897 cpx30348
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rxn05887 c0|e0 = = conditional 4 0 0 cpx30485
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rxn05893 c0|e0 = = conditional 13 0 0 cpx01366|cpx31531
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rxn05893 c0|e0 = = conditional 13 0 0 cpx01366
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rxn05899 c0|e0 = = conditional 4 0 -0.389 cpx32817
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rxn05901 c0|e0 = = conditional 4 0 0.6386 cpx31956
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rxn05902 c0|e0 = = conditional 5 0 0 cpx01309|cpx01310|cpx01311
@@ -4493,7 +4493,7 @@ rxn05995 c0|e0 = = conditional 5 2.655 0 cpx31145|cpx31176
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rxn06002 c0|e0 = = conditional 4 0 0.6386 cpx32019
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rxn06005 c0|e0 = = conditional 4 0 0.6887 cpx33710
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rxn06012 c0|e0 = = conditional 4 0 0 cpx32017
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rxn06022 c0|e0 > = conditional 2 0 0.5187 cpx00403|cpx33523
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rxn06022 c0|e0 > = conditional 2 0 0.5187 cpx00403
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rxn06023 c0|e0 = = conditional 2 0 0 cpx00874|cpx00875|cpx33033|cpx33065
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rxn06025 c0|e0 = = conditional 4 0 0 cpx32111
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rxn06031 c0|e0 = = conditional 5 0 0.0316 cpx31100
@@ -7073,7 +7073,7 @@ rxn12781 c0|e0 = = gapfilling 6 0 0.0197 null
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rxn12782 c0|e0 = = gapfilling 6 0 0.0197 null
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rxn12800 c0|e0 = = gapfilling 7 0 0 null
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rxn12811 c0|e0 = = gapfilling 8 0 0 null
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rxn12822 c0|e0 = = conditional 13 0 0 cpx00640|cpx31353
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rxn12822 c0|e0 = = conditional 13 0 0 cpx00640
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rxn12844 c0|e0 = = conditional 5 0 0 cpx00045|cpx00046|cpx00047|cpx00048|cpx00049|cpx00050|cpx00051|cpx00052
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rxn12845 c0|e0 = = conditional 5 0 0 cpx00045|cpx00046|cpx00047|cpx00048|cpx00049|cpx00050|cpx00051|cpx00052
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rxn12846 c0|e0 = = conditional 5 0 0 cpx00045|cpx00046|cpx00047|cpx00048|cpx00049|cpx00050|cpx00051|cpx00052

‎Templates/Mycobacteria/Reactions.tsv

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Original file line numberDiff line numberDiff line change
@@ -4366,7 +4366,7 @@ rxn05881 c0|e0 = = conditional 5 0 -3.15127 cpx31082
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rxn05882 c0|e0 = = conditional 5 0 0.591 cpx34739
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rxn05883 c0|e0 = = conditional 5 0 -1.64897 cpx30348
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rxn05887 c0|e0 = = conditional 4 0 0 cpx30485
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rxn05893 c0|e0 = = conditional 13 0 0 cpx01366|cpx31531
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rxn05893 c0|e0 = = conditional 13 0 0 cpx01366
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rxn05899 c0|e0 = = conditional 4 0 -0.389 cpx32817
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rxn05901 c0|e0 = = conditional 4 0 0.6386 cpx31956
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rxn05902 c0|e0 = = conditional 5 0 0 cpx01309|cpx01310|cpx01311
@@ -4415,7 +4415,7 @@ rxn05995 c0|e0 = = conditional 5 2.655 0 cpx31145|cpx31176
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rxn06002 c0|e0 = = conditional 4 0 0.6386 cpx32019
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rxn06005 c0|e0 = = conditional 4 0 0.6887 cpx33710
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rxn06012 c0|e0 = = conditional 4 0 0 cpx32017
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rxn06022 c0|e0 > = conditional 2 0 0.5187 cpx00403|cpx33523
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rxn06022 c0|e0 > = conditional 2 0 0.5187 cpx00403
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rxn06023 c0|e0 = = conditional 2 0 0 cpx00874|cpx00875|cpx33033|cpx33065
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rxn06025 c0|e0 = = conditional 4 0 0 cpx32111
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rxn06031 c0|e0 = = conditional 5 0 0.0316 cpx31100
@@ -7032,7 +7032,7 @@ rxn12781 c0|e0 = = gapfilling 6 0 0.0197 null
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rxn12782 c0|e0 = = gapfilling 6 0 0.0197 null
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rxn12800 c0|e0 = = gapfilling 7 0 0 null
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rxn12811 c0|e0 = = gapfilling 8 0 0 null
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rxn12822 c0|e0 = = conditional 13 0 0 cpx00640|cpx31353
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rxn12822 c0|e0 = = conditional 13 0 0 cpx00640
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rxn12844 c0|e0 = = conditional 5 0 0 cpx00045|cpx00046|cpx00047|cpx00048|cpx00049|cpx00050|cpx00051|cpx00052
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rxn12845 c0|e0 = = conditional 5 0 0 cpx00045|cpx00046|cpx00047|cpx00048|cpx00049|cpx00050|cpx00051|cpx00052
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rxn12846 c0|e0 = = conditional 5 0 0 cpx00045|cpx00046|cpx00047|cpx00048|cpx00049|cpx00050|cpx00051|cpx00052

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