From b14557b575215b2aefbf426a70c744a4fbd87c7a Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 10:56:43 +0100 Subject: [PATCH 01/14] Fix 189347 --- modeldb/modeldb-run.yaml | 1 + 1 file changed, 1 insertion(+) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index 775f409..c3ad0dd 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -1397,6 +1397,7 @@ # guessed from mosinit.hoc, there are other options model_dir: "01_Soma-dendritic_recordings/01_Control/140311-C1/syncytium/num10" 189347: + github: 'pull/1' script: # we launch with special so don't try and dlopen mechanisms too - sed -i'.bak' 's#nrn_load_dll#// nrn_load_dll#g' main.hoc From 6dbb59c1e4e738b8f4c4ba954774a6205f1f6b6b Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 11:00:01 +0100 Subject: [PATCH 02/14] Rerun CI From 2536216a0ec920692f27952c046d456052470e01 Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 11:08:52 +0100 Subject: [PATCH 03/14] Fix 185513 --- modeldb/modeldb-run.yaml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index c3ad0dd..28cebe8 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -1898,3 +1898,5 @@ 2016662: skip: true comment: "Not on GitHub and dirs contain spaces" +185513: + github: 'pull/3' From 851b3bdefc73285f4baee8d263cc71dabe42d8ac Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 11:14:22 +0100 Subject: [PATCH 04/14] Fix 180373 --- modeldb/modeldb-run.yaml | 1 + 1 file changed, 1 insertion(+) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index 28cebe8..51c0e41 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -615,6 +615,7 @@ - run() - verify_graph_() 180373: + github: 'pull/1' model_dir: simulationcode run: - run() From cb939ce0387386247fae2f03bf507b666618dec4 Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 11:49:41 +0100 Subject: [PATCH 05/14] Fix models 105507 and 139150 --- modeldb/modeldb-run.yaml | 3 +++ 1 file changed, 3 insertions(+) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index 51c0e41..2152a3f 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -779,6 +779,7 @@ - run() - verify_graph_() 105507: + github: 'pull/4' run: - load_file("batch_.hoc") - verify_graph_() @@ -1901,3 +1902,5 @@ comment: "Not on GitHub and dirs contain spaces" 185513: github: 'pull/3' +139150: + github: 'pull/1' From f27526010b8cdf24fb77f62ab19334a32d6782ea Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 12:12:00 +0100 Subject: [PATCH 06/14] 150245 is broken --- modeldb/modeldb-run.yaml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index 2152a3f..2ee4220 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -1296,6 +1296,8 @@ 150239: model_dir: nrn/mod 150245: + skip: true + comment: "Files missing" github: "pull/4" curate_patterns: - pattern: 't=100\.00;176\([0-9]+\.[0-9]+\)' From 5cd4e8c34fc54f9a0be0bd0217ac3f5b52956990 Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 12:27:23 +0100 Subject: [PATCH 07/14] Trigger CI From fd171d1d1db21f8044718da6c384a423460cc9b9 Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 16:21:53 +0100 Subject: [PATCH 08/14] Revert unrelated changes --- modeldb/modeldb-run.yaml | 7 ------- 1 file changed, 7 deletions(-) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index 2ee4220..893fd6e 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -615,7 +615,6 @@ - run() - verify_graph_() 180373: - github: 'pull/1' model_dir: simulationcode run: - run() @@ -1296,8 +1295,6 @@ 150239: model_dir: nrn/mod 150245: - skip: true - comment: "Files missing" github: "pull/4" curate_patterns: - pattern: 't=100\.00;176\([0-9]+\.[0-9]+\)' @@ -1902,7 +1899,3 @@ 2016662: skip: true comment: "Not on GitHub and dirs contain spaces" -185513: - github: 'pull/3' -139150: - github: 'pull/1' From a17020e254746ebdf84474c7eb6ca50a7d00d5d8 Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 17:15:58 +0100 Subject: [PATCH 09/14] Fix 139150 --- modeldb/modeldb-run.yaml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index 893fd6e..d7398cb 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -1899,3 +1899,5 @@ 2016662: skip: true comment: "Not on GitHub and dirs contain spaces" +139150: + github: 'pull/1' From ebe73b1b098047fbcf56644131f6c38e3dc7e03c Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 17:39:56 +0100 Subject: [PATCH 10/14] Fix 180373 --- modeldb/modeldb-run.yaml | 1 + 1 file changed, 1 insertion(+) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index d7398cb..faad3ce 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -615,6 +615,7 @@ - run() - verify_graph_() 180373: + github: 'pull/1' model_dir: simulationcode run: - run() From 904ba6832b25c8fd167206f229a1ef3c0dc9392a Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Tue, 12 Nov 2024 17:50:11 +0100 Subject: [PATCH 11/14] Fix 185513 --- modeldb/modeldb-run.yaml | 2 ++ 1 file changed, 2 insertions(+) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index faad3ce..f5248b6 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -1902,3 +1902,5 @@ comment: "Not on GitHub and dirs contain spaces" 139150: github: 'pull/1' +185513: + github: 'pull/3' From 8fe9e7f467cb934d16a5d155b3ecf46f52ede103 Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Wed, 13 Nov 2024 10:30:48 +0100 Subject: [PATCH 12/14] Fix 32992 --- modeldb/modeldb-run.yaml | 1 + 1 file changed, 1 insertion(+) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index f5248b6..2192439 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -378,6 +378,7 @@ - fig1a() - verify_graph_() 32992: + github: 'pull/1' run: - verify_graph_() script: From 41ee5597526a7f7df014ce5dff2d73ef8ab43bc4 Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Wed, 13 Nov 2024 13:04:21 +0100 Subject: [PATCH 13/14] Fix rest of the models --- modeldb/modeldb-run.yaml | 29 ++++++++++++++++++++++++++++- 1 file changed, 28 insertions(+), 1 deletion(-) diff --git a/modeldb/modeldb-run.yaml b/modeldb/modeldb-run.yaml index 2192439..0ea3154 100644 --- a/modeldb/modeldb-run.yaml +++ b/modeldb/modeldb-run.yaml @@ -441,6 +441,7 @@ - run() - verify_graph_() 51781: + github: 'pull/3' run: - load_file("testnet.hoc") - verify_graph_() @@ -797,6 +798,7 @@ - pattern: '\s*\^\s*' repl: '' 106551: + github: 'pull/2' run: - use_mcell_ran4(1) - tstop=10 @@ -858,6 +860,7 @@ - runiv() - verify_graph_() 112685: + github: 'pull/3' run: - run() - verify_graph_() @@ -1038,6 +1041,7 @@ - run() - verify_graph_() 119283: + github: 'pull/1' run: - use_mcell_ran4(1) - runi() @@ -1287,6 +1291,7 @@ - iconv -f ISO-8859-1 -t UTF-8 init_ClmIPSCs_GC.hoc.iconv.bak > init_ClmIPSCs_GC.hoc - sed -i'.bak' -e 's#ropen(#// ropen(#g;s#rseed = fscan()#rseed=424242#g' init_ClmIPSCs_GC.hoc 149739: + github: 'pull/3' run: - verify_graph_() script: @@ -1349,6 +1354,7 @@ 168310: model_dir: experiment 168314: + github: 'pull/1' script: # fixup for case-sensitive filesystems - sed -i'.bak' 's#path = "./inputs/"#path = "./Inputs/"#g' ReadExperiments.hoc @@ -1364,6 +1370,7 @@ comment: ".mod files do not compile" skip: true 183300: + github: 'pull/2' # Arbitrarily ignoring .mod files under early_theta_version/ model_dir: "." 183718: @@ -1442,6 +1449,7 @@ # README suggests all should be included model_dir: "mechanisms/Event_stream;mechanisms/Golgi_CL;mechanisms/Granule_CL;mechanisms/Presynaptic_spike_generator;mechanisms/Synapses;mechanisms/gap" 232097: + github: 'pull/2' script: - mkdir connection input curate_patterns: @@ -1706,6 +1714,7 @@ script: - sed -i'.bak' -e 's/tstop=/tstop=100 \/\//' Start.hoc 157157: + github: 'pull/3' run: - run() - verify_graph_() @@ -1884,7 +1893,7 @@ 266498: model_dir: 'MultiCompartmentModels/Mod' 266578: - github: 'pull/2' + github: 'pull/3' 33728: github: 'pull/1' 2014832: @@ -1905,3 +1914,21 @@ github: 'pull/1' 185513: github: 'pull/3' +151731: + github: 'pull/1' +147757: + github: 'pull/1' +155602: + github: 'pull/3' +257027: + github: 'pull/1' +2015410: + github: 'pull/1' +128559: + github: 'pull/1' +127021: + github: 'pull/3' +137259: + github: 'pull/1' +126640: + github: 'pull/1' From c830c7a67c5a7fbcc6324b8a822354622d543b61 Mon Sep 17 00:00:00 2001 From: Goran Jelic-Cizmek Date: Wed, 13 Nov 2024 13:23:37 +0100 Subject: [PATCH 14/14] Rerun CI