From cb080c157e6ac3ea70bbdfcd29d1a2e76789c34e Mon Sep 17 00:00:00 2001
From: Javi Corvi <javicorvi@gmail.com>
Date: Thu, 1 Sep 2022 14:55:10 +0200
Subject: [PATCH 1/3] wf id parameter

---
 bash_workflow/run.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/bash_workflow/run.sh b/bash_workflow/run.sh
index a5c0596..1280300 100644
--- a/bash_workflow/run.sh
+++ b/bash_workflow/run.sh
@@ -74,7 +74,7 @@ pretox-terminology-annotation -i "${sentence_classification_output_folder}" -o "
 echo "Pretox sr domain identification"
 pretox-sr-domain-identification -i "${pretox_terminology_annotator_folder}" -o "${pretox_output_folder}" -a PRETOX -ar FINDINGS
 echo "Start import_json_to_mongo"
-import-json-to-mongo -i "${pretox_output_folder}" -c "${db_uri}" -d "${db_name}"
+import-json-to-mongo -i "${pretox_output_folder}" -c "${db_uri}" -d "${db_name}" -w ${executionId}
 echo "End import_json_to_mongo"
 
 
-- 
GitLab


From 04a5b2d27766f2c41bc660fbd4b57a83bec6ddac Mon Sep 17 00:00:00 2001
From: Javi Corvi <javicorvi@gmail.com>
Date: Thu, 1 Sep 2022 15:31:39 +0200
Subject: [PATCH 2/3] log for import

---
 bash_workflow/import-json-to-mongo/docker-build.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/bash_workflow/import-json-to-mongo/docker-build.sh b/bash_workflow/import-json-to-mongo/docker-build.sh
index 1589e6e..a9bb303 100755
--- a/bash_workflow/import-json-to-mongo/docker-build.sh
+++ b/bash_workflow/import-json-to-mongo/docker-build.sh
@@ -3,7 +3,7 @@
 HOME=/usr/local/share/components/import-json-to-mongo/
 cd "${HOME}"
 
-git clone -b 2.1 https://gitlab.bsc.es/inb/etransafe/pretox-import-pipeline-results-to-mongo.git
+git clone -b 2.1.C https://gitlab.bsc.es/inb/etransafe/pretox-import-pipeline-results-to-mongo.git
 cd pretox-import-pipeline-results-to-mongo
 
 mvn clean install -DskipTests
-- 
GitLab


From b53474cbf96a5e366769872d2d572ba4f99013b8 Mon Sep 17 00:00:00 2001
From: Javi Corvi <javicorvi@gmail.com>
Date: Thu, 1 Sep 2022 15:34:33 +0200
Subject: [PATCH 3/3] parameter

---
 bash_workflow/run.sh | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/bash_workflow/run.sh b/bash_workflow/run.sh
index 1280300..a6d9811 100644
--- a/bash_workflow/run.sh
+++ b/bash_workflow/run.sh
@@ -74,7 +74,7 @@ pretox-terminology-annotation -i "${sentence_classification_output_folder}" -o "
 echo "Pretox sr domain identification"
 pretox-sr-domain-identification -i "${pretox_terminology_annotator_folder}" -o "${pretox_output_folder}" -a PRETOX -ar FINDINGS
 echo "Start import_json_to_mongo"
-import-json-to-mongo -i "${pretox_output_folder}" -c "${db_uri}" -d "${db_name}" -w ${executionId}
+import-json-to-mongo -i "${pretox_output_folder}" -c "${db_uri}" -d "${db_name}" -w "${executionId}"
 echo "End import_json_to_mongo"
 
 
-- 
GitLab