Automated report

hubmapconsortium · Feb 9, 2022 · 87b0130 · 87b0130
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diff --git a/graphs/ccf_Blood_graph.png b/graphs/ccf_Blood_graph.png
diff --git a/graphs/ccf_Blood_vasculature_graph.png b/graphs/ccf_Blood_vasculature_graph.png
diff --git a/graphs/ccf_Bone-Marrow_graph.png b/graphs/ccf_Bone-Marrow_graph.png
diff --git a/graphs/ccf_Brain_graph.png b/graphs/ccf_Brain_graph.png
diff --git a/graphs/ccf_Eye_graph.png b/graphs/ccf_Eye_graph.png
diff --git a/graphs/ccf_Fallopian_tube_graph.png b/graphs/ccf_Fallopian_tube_graph.png
diff --git a/graphs/ccf_Heart_graph.png b/graphs/ccf_Heart_graph.png
diff --git a/graphs/ccf_Kidney_graph.png b/graphs/ccf_Kidney_graph.png
diff --git a/graphs/ccf_Knee_graph.png b/graphs/ccf_Knee_graph.png
diff --git a/graphs/ccf_Large_intestine_graph.png b/graphs/ccf_Large_intestine_graph.png
diff --git a/graphs/ccf_Liver_graph.png b/graphs/ccf_Liver_graph.png
diff --git a/graphs/ccf_Lung_graph.png b/graphs/ccf_Lung_graph.png
diff --git a/graphs/ccf_Lymph_node_graph.png b/graphs/ccf_Lymph_node_graph.png
diff --git a/graphs/ccf_Lymph_vasculature_graph.png b/graphs/ccf_Lymph_vasculature_graph.png
diff --git a/graphs/ccf_Ovary_graph.png b/graphs/ccf_Ovary_graph.png
diff --git a/graphs/ccf_Pancreas_graph.png b/graphs/ccf_Pancreas_graph.png
diff --git a/graphs/ccf_Peripheral_nervous_system_graph.png b/graphs/ccf_Peripheral_nervous_system_graph.png
diff --git a/graphs/ccf_Prostate_graph.png b/graphs/ccf_Prostate_graph.png
diff --git a/graphs/ccf_Skin_graph.png b/graphs/ccf_Skin_graph.png
diff --git a/graphs/ccf_Small_intestine_graph.png b/graphs/ccf_Small_intestine_graph.png
diff --git a/graphs/ccf_Spleen_graph.png b/graphs/ccf_Spleen_graph.png
diff --git a/graphs/ccf_Thymus_graph.png b/graphs/ccf_Thymus_graph.png
diff --git a/graphs/ccf_Ureter_graph.png b/graphs/ccf_Ureter_graph.png
diff --git a/graphs/ccf_Urinary_bladder_graph.png b/graphs/ccf_Urinary_bladder_graph.png
diff --git a/graphs/ccf_Uterus_graph.png b/graphs/ccf_Uterus_graph.png
diff --git a/logs/class_Blood_vasculature_indirect_log.tsv b/logs/class_Blood_vasculature_indirect_log.tsv
@@ -111,77 +111,9 @@ UBERON:0001636	posterior cerebral artery	posterior cerebral artery	UBERON:000163
 UBERON:0001635	superior cerebellar artery	superior cerebellar artery	UBERON:0001633	basilar artery	basilar artery
 UBERON:0009688	posterior inferior cerebellar artery	posterior inferior cerebellar artery	UBERON:0001535	vertebral artery	vertebral artery
 UBERON:0001139	common iliac vein	common iliac vein	UBERON:0001072	posterior vena cava	posterior vena cava
-UBERON:0001363	great saphenous vein	great saphenous vein	UBERON:0001361	femoral vein	femoral vein
-UBERON:0001550	medial marginal vein	medial marginal vein	UBERON:0001363	great saphenous vein	great saphenous vein
-UBERON:0014692	superficial epigastric vein	superficial epigastric vein	UBERON:0001363	great saphenous vein	great saphenous vein
-UBERON:0035234	medial circumflex femoral vein	medial circumflex femoral vein	UBERON:0001361	femoral vein	femoral vein
-UBERON:0001544	popliteal vein	popliteal vein	UBERON:0001361	femoral vein	femoral vein
-UBERON:0001545	anterior tibial vein	anterior tibial vein	UBERON:0001544	popliteal vein	popliteal vein
-UBERON:0013143	gastrocnemius vein	gastrocnemius vein	UBERON:0001544	popliteal vein	popliteal vein
-UBERON:0001546	posterior tibial vein	posterior tibial vein	UBERON:0001544	popliteal vein	popliteal vein
-UBERON:0001547	small saphenous vein	small saphenous vein	UBERON:0001544	popliteal vein	popliteal vein
-UBERON:0001548	lateral marginal vein	lateral marginal vein	UBERON:0001547	small saphenous vein	small saphenous vein
-UBERON:0013144	vein of genicular venous plexus	vein of genicular venous plexus	UBERON:0001544	popliteal vein	popliteal vein
-UBERON:0007154	inferior epigastric vein	inferior epigastric vein	UBERON:0001316	external iliac vein	external iliac vein
-UBERON:0006690	deep dorsal vein of clitoris	deep dorsal vein of clitoris	UBERON:0001317	internal iliac vein	internal iliac vein
-UBERON:0006656	deep dorsal vein of penis	deep dorsal vein of penis	UBERON:0001317	internal iliac vein	internal iliac vein
-UBERON:0001318	inferior vesical vein	inferior vesical vein	UBERON:0001317	internal iliac vein	internal iliac vein
-UBERON:0001321	obturator vein	obturator vein	UBERON:0001317	internal iliac vein	internal iliac vein
-UBERON:0001362	perineal vein	perineal vein	UBERON:0001317	internal iliac vein	internal iliac vein
-UBERON:0006355	superior vesical vein	superior vesical vein	UBERON:0001317	internal iliac vein	internal iliac vein
-UBERON:0001319	vaginal vein	vaginal vein	UBERON:0001317	internal iliac vein	internal iliac vein
-UBERON:0002460	vesical vein	vesical vein	UBERON:0001317	internal iliac vein	internal iliac vein
-UBERON:0001143	hepatic vein	hepatic vein	UBERON:0001072	posterior vena cava	posterior vena cava
-UBERON:0001215	inferior mesenteric vein	inferior mesenteric vein	UBERON:0003713	splenic vein	splenic vein
-UBERON:0001214	pancreatic tributary of splenic vein	pancreatic tributary of splenic vein	UBERON:0003713	splenic vein	splenic vein
-UBERON:0001217	ileal vein	ileal vein	UBERON:0001138	superior mesenteric vein	superior mesenteric vein
 UBERON:0001219	ileocolic vein	ileocolic vein	UBERON:0001138	superior mesenteric vein	superior mesenteric vein
-UBERON:0001216	jejunal vein	jejunal vein	UBERON:0001138	superior mesenteric vein	superior mesenteric vein
-UBERON:0001218	middle colic vein	middle colic vein	UBERON:0001138	superior mesenteric vein	superior mesenteric vein
-UBERON:0011955	left hepatic vein	left hepatic vein	UBERON:0001072	posterior vena cava	posterior vena cava
-UBERON:0001142	left renal vein	left renal vein	UBERON:0001072	posterior vena cava	posterior vena cava
-UBERON:0011957	middle hepatic vein	middle hepatic vein	UBERON:0001072	posterior vena cava	posterior vena cava
-UBERON:0001140	renal vein	renal vein	UBERON:0001072	posterior vena cava	posterior vena cava
-UBERON:0011956	right hepatic vein	right hepatic vein	UBERON:0001072	posterior vena cava	posterior vena cava
-UBERON:0001141	right renal vein	right renal vein	UBERON:0001072	posterior vena cava	posterior vena cava
-UBERON:0006665	accessory hemiazygos vein	accessory hemiazygos vein	UBERON:0001594	azygos vein	azygos vein
-UBERON:0006663	hemiazygos vein	hemiazygos vein	UBERON:0001594	azygos vein	azygos vein
-UBERON:0001660	maxillary vein	maxillary vein	UBERON:0001656	retromandibular vein	retromandibular vein
-UBERON:0001658	middle temporal vein	middle temporal vein	UBERON:0001656	retromandibular vein	retromandibular vein
-UBERON:0001657	superficial temporal vein	superficial temporal vein	UBERON:0001656	retromandibular vein	retromandibular vein
-UBERON:0001659	transverse facial vein #2	transverse facial vein	UBERON:0001656	retromandibular vein	retromandibular vein
-UBERON:0001653	facial vein	facial vein	UBERON:0001586	internal jugular vein	internal jugular vein
-UBERON:0014686	angular vein	angular vein	UBERON:0001653	facial vein	facial vein
-UBERON:0002459	inferior palpebral vein	inferior palpebral vein	UBERON:0014686	angular vein	angular vein
-UBERON:0014768	superior palpebral vein	superior palpebral vein	UBERON:0014686	angular vein	angular vein
-UBERON:0001654	supraorbital vein	supraorbital vein	UBERON:0014686	angular vein	angular vein
-UBERON:0035659	deep facial vein	deep facial vein	UBERON:0001653	facial vein	facial vein
-UBERON:0003478	vein of lower lip	vein of lower lip	UBERON:0001653	facial vein	facial vein
-UBERON:0035662	parotid vein	parotid vein	UBERON:0001653	facial vein	facial vein
-UBERON:0001655	submental vein	submental vein	UBERON:0001653	facial vein	facial vein
-UBERON:0003477	vein of upper lip	vein of upper lip	UBERON:0001653	facial vein	facial vein
 UBERON:0034982	inferior bulb of internal jugular vein	inferior bulb of internal jugular vein	UBERON:0001586	internal jugular vein	internal jugular vein
-UBERON:0001673	central retinal vein	central retinal vein	UBERON:0003712	cavernous sinus	cavernous sinus
-UBERON:0036300	tributary of central retinal vein	tributary of central retinal vein	UBERON:0001673	central retinal vein	central retinal vein
-UBERON:0035231	superficial middle cerebral vein	superficial middle cerebral vein	UBERON:0003712	cavernous sinus	cavernous sinus
-UBERON:0005475	sigmoid sinus	sigmoid sinus	UBERON:0001586	internal jugular vein	internal jugular vein
-UBERON:0001641	transverse sinus	transverse sinus	UBERON:0005475	sigmoid sinus	sigmoid sinus
-UBERON:0035532	deep middle cerebral vein	deep middle cerebral vein	UBERON:0035530	basal vein	basal vein
-UBERON:0036074	vein of vestibular aqueduct	vein of vestibular aqueduct	UBERON:0001641	transverse sinus	transverse sinus
 UBERON:0034981	superior bulb of internal jugular vein	superior bulb of internal jugular vein	UBERON:0001586	internal jugular vein	internal jugular vein
-UBERON:0006662	musculo-phrenic vein	musculo-phrenic vein	UBERON:0001589	internal thoracic vein	internal thoracic vein
-UBERON:0007155	superior epigastric vein	superior epigastric vein	UBERON:0001589	internal thoracic vein	internal thoracic vein
-UBERON:0001411	basilic vein	basilic vein	UBERON:0000985	axillary vein	axillary vein
-UBERON:0001413	brachial vein	brachial vein	UBERON:0000985	axillary vein	axillary vein
-UBERON:0004561	proper palmar digital vein	proper palmar digital vein	UBERON:0001412	common palmar digital vein	common palmar digital vein
-UBERON:0001106	cephalic vein	cephalic vein	UBERON:0000985	axillary vein	axillary vein
-UBERON:0002088	lateral thoracic vein	lateral thoracic vein	UBERON:0000985	axillary vein	axillary vein
-UBERON:0001420	subscapular vein	subscapular vein	UBERON:0000985	axillary vein	axillary vein
-UBERON:0002089	thoracodorsal vein	thoracodorsal vein	UBERON:0000985	axillary vein	axillary vein
-UBERON:0001101	external jugular vein	external jugular vein	UBERON:0001587	subclavian vein	subclavian vein
-UBERON:0001104	anterior jugular vein	anterior jugular vein	UBERON:0001101	external jugular vein	external jugular vein
-UBERON:0006199	posterior auricular vein	posterior auricular vein	UBERON:0001101	external jugular vein	external jugular vein
-UBERON:0035249	posterior external jugular vein	posterior external jugular vein	UBERON:0001101	external jugular vein	external jugular vein
 UBERON:0002079	left cardiac atrium	left cardiac atrium	UBERON:0004537	blood vasculature	blood vasculature
 UBERON:0002084	heart left ventricle	heart left ventricle	UBERON:0004537	blood vasculature	blood vasculature
 UBERON:0002078	right cardiac atrium	right cardiac atrium	UBERON:0004537	blood vasculature	blood vasculature

diff --git a/logs/error_class_Blood.log b/logs/error_class_Blood.log
@@ -1,23 +1,25 @@
+/usr/local/lib/python3.8/dist-packages/rdflib_jsonld/__init__.py:9: DeprecationWarning: The rdflib-jsonld package has been integrated into rdflib as of rdflib==6.0.1.  Please remove rdflib-jsonld from your project's dependencies.
+  warnings.warn(
 WARNING - No valid ID provided for '', label: CD4 T cell memory, user_label: 
 WARNING - No valid ID provided for '', label: CD4 T cell effector memory CD45RA, user_label: 
 WARNING - No valid ID provided for '', label: CD8 T cell memory, user_label: 
 WARNING - No valid ID provided for '', label: mature CD8 T cell, user_label: 
-WARNING - Different labels found for CL:0000824. Uberongraph: mature natural killer cell ; ASCT+b table: mature Natural killer
-WARNING - Different labels found for CL:0001050. Uberongraph: effector CD8-positive, alpha-beta T cell ; ASCT+b table: CD8 T cell effector memory
-WARNING - Different labels found for CL:0002399. Uberongraph: CD1c-positive myeloid dendritic cell ; ASCT+b table: dendritic cell type 2 (DC2)
-WARNING - Different labels found for CL:0002396. Uberongraph: CD14-low, CD16-positive monocyte ; ASCT+b table: CD16 monocyte
-WARNING - Different labels found for CL:0000815. Uberongraph: regulatory T cell ; ASCT+b table: T regulatory
-WARNING - Different labels found for CL:0000900. Uberongraph: naive thymus-derived CD8-positive, alpha-beta T cell ; ASCT+b table: CD8 na√Øve
+WARNING - Different labels found for CL:0000084. Uberongraph: T cell ; ASCT+b table: T lymphocytes
 WARNING - Different labels found for CL:0000938. Uberongraph: CD16-negative, CD56-bright natural killer cell, human ; ASCT+b table: CD56 bright Natural killer
-WARNING - Different labels found for CL:0000775. Uberongraph: neutrophil ; ASCT+b table: neutrophilic granulocyte
 WARNING - Different labels found for CL:0002394. Uberongraph: CD141-positive myeloid dendritic cell ; ASCT+b table: dendritic cell type 1 (DC1)
-WARNING - Different labels found for CL:0000818. Uberongraph: transitional stage B cell ; ASCT+b table: transitional B cell
 WARNING - Different labels found for CL:0000814. Uberongraph: mature NK T cell ; ASCT+b table: NK lymphocytes
+WARNING - Different labels found for CL:0000775. Uberongraph: neutrophil ; ASCT+b table: neutrophilic granulocyte
 WARNING - Different labels found for CL:0001062. Uberongraph: effector memory CD8-positive, alpha-beta T cell, terminally differentiated ; ASCT+b table: CD8 T cell effector memory CD45RA
-WARNING - Different labels found for CL:0000084. Uberongraph: T cell ; ASCT+b table: T lymphocytes
 WARNING - Different labels found for CL:0001058. Uberongraph: plasmacytoid dendritic cell, human ; ASCT+b table: Plasmacytoid Dendritic Cell (pDC)
 WARNING - Different labels found for CL:0001056. Uberongraph: dendritic cell, human ; ASCT+b table: dendritic cell (DC)
-WARNING - Different labels found for CL:0001054. Uberongraph: CD14-positive monocyte ; ASCT+b table: CD14 monocyte
+WARNING - Different labels found for CL:0000945. Uberongraph: lymphocyte of B lineage ; ASCT+b table: B lineage
+WARNING - Different labels found for CL:0000815. Uberongraph: regulatory T cell ; ASCT+b table: T regulatory
+WARNING - Different labels found for CL:0000818. Uberongraph: transitional stage B cell ; ASCT+b table: transitional B cell
 WARNING - Different labels found for CL:0000840. Uberongraph: immature conventional dendritic cell ; ASCT+b table: transitional Dendritic Cell (tDC)
+WARNING - Different labels found for CL:0000900. Uberongraph: naive thymus-derived CD8-positive, alpha-beta T cell ; ASCT+b table: CD8 na√Øve
+WARNING - Different labels found for CL:0002399. Uberongraph: CD1c-positive myeloid dendritic cell ; ASCT+b table: dendritic cell type 2 (DC2)
+WARNING - Different labels found for CL:0000824. Uberongraph: mature natural killer cell ; ASCT+b table: mature Natural killer
+WARNING - Different labels found for CL:0001054. Uberongraph: CD14-positive monocyte ; ASCT+b table: CD14 monocyte
+WARNING - Different labels found for CL:0001050. Uberongraph: effector CD8-positive, alpha-beta T cell ; ASCT+b table: CD8 T cell effector memory
 WARNING - Different labels found for CL:0000895. Uberongraph: naive thymus-derived CD4-positive, alpha-beta T cell ; ASCT+b table: CD4 na√Øve
-WARNING - Different labels found for CL:0000945. Uberongraph: lymphocyte of B lineage ; ASCT+b table: B lineage
+WARNING - Different labels found for CL:0002396. Uberongraph: CD14-low, CD16-positive monocyte ; ASCT+b table: CD16 monocyte