From 009730b3d1616fa3337cad380b9ff8e55641c9a5 Mon Sep 17 00:00:00 2001 From: "miriam.baglioni" Date: Fri, 22 Dec 2023 11:42:09 +0100 Subject: [PATCH] added properties file in the forlder for the workflow of orcid propagation. Changes the path in the classes implementing the propagationchanged the path to the parameter file in the class for entitytoorganization propagation --- .../PrepareResultOrcidAssociationStep1.java | 2 +- .../PrepareResultOrcidAssociationStep2.java | 2 +- .../SparkOrcidToResultFromSemRelJob.java | 2 +- .../input_orcidtoresult_parameters.json | 44 +++++++++++++++++++ ...input_prepareorcidtoresult_parameters.json | 38 ++++++++++++++++ ...nput_prepareorcidtoresult_parameters2.json | 20 +++++++++ 6 files changed, 105 insertions(+), 3 deletions(-) create mode 100644 dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_orcidtoresult_parameters.json create mode 100644 dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters.json create mode 100644 dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters2.json diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep1.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep1.java index 95b870292..bc72a2ae1 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep1.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep1.java @@ -31,7 +31,7 @@ public class PrepareResultOrcidAssociationStep1 { .toString( PrepareResultOrcidAssociationStep1.class .getResourceAsStream( - "/eu/dnetlib/dhp/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters.json")); + "/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters.json")); final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConf); parser.parseArgument(args); diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep2.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep2.java index c60012a74..46894d0e1 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep2.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/PrepareResultOrcidAssociationStep2.java @@ -29,7 +29,7 @@ public class PrepareResultOrcidAssociationStep2 { .toString( PrepareResultOrcidAssociationStep2.class .getResourceAsStream( - "/eu/dnetlib/dhp/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters2.json")); + "/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters2.json")); final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration); diff --git a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/SparkOrcidToResultFromSemRelJob.java b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/SparkOrcidToResultFromSemRelJob.java index 5f9260e5d..c5d632658 100644 --- a/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/SparkOrcidToResultFromSemRelJob.java +++ b/dhp-workflows/dhp-enrichment/src/main/java/eu/dnetlib/dhp/orcidtoresultfromsemrel/SparkOrcidToResultFromSemRelJob.java @@ -36,7 +36,7 @@ public class SparkOrcidToResultFromSemRelJob { .toString( SparkOrcidToResultFromSemRelJob.class .getResourceAsStream( - "/eu/dnetlib/dhp/orcidtoresultfromsemrel/input_orcidtoresult_parameters.json")); + "/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_orcidtoresult_parameters.json")); final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration); parser.parseArgument(args); diff --git a/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_orcidtoresult_parameters.json b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_orcidtoresult_parameters.json new file mode 100644 index 000000000..3cbaa23bb --- /dev/null +++ b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_orcidtoresult_parameters.json @@ -0,0 +1,44 @@ +[ + { + "paramName":"s", + "paramLongName":"sourcePath", + "paramDescription": "the path of the sequencial file to read", + "paramRequired": true + }, + { + "paramName":"sg", + "paramLongName":"saveGraph", + "paramDescription": "true if the new version of the graph must be saved", + "paramRequired": false + }, + { + "paramName": "out", + "paramLongName": "outputPath", + "paramDescription": "the path used to store temporary output files", + "paramRequired": true + }, + { + "paramName": "ssm", + "paramLongName": "isSparkSessionManaged", + "paramDescription": "true if the spark session is managed, false otherwise", + "paramRequired": false + }, + { + "paramName":"tn", + "paramLongName":"resultTableName", + "paramDescription": "the name of the result table we are currently working on", + "paramRequired": true + }, + { + "paramName":"pu", + "paramLongName":"possibleUpdatesPath", + "paramDescription": "the path the the association resultId orcid author list can be found", + "paramRequired": true + }, + { + "paramName":"test", + "paramLongName":"isTest", + "paramDescription": "true if it is executing a test", + "paramRequired": false + } +] \ No newline at end of file diff --git a/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters.json b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters.json new file mode 100644 index 000000000..08648d61a --- /dev/null +++ b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters.json @@ -0,0 +1,38 @@ +[ + { + "paramName":"s", + "paramLongName":"sourcePath", + "paramDescription": "the path of the sequencial file to read", + "paramRequired": true + }, + { + "paramName":"as", + "paramLongName":"allowedsemrels", + "paramDescription": "the allowed sematinc relations for propagation", + "paramRequired": true + }, + { + "paramName":"h", + "paramLongName":"hive_metastore_uris", + "paramDescription": "the hive metastore uris", + "paramRequired": true + }, + { + "paramName": "out", + "paramLongName": "outputPath", + "paramDescription": "the path used to store temporary output files", + "paramRequired": true + }, + { + "paramName": "ssm", + "paramLongName": "isSparkSessionManaged", + "paramDescription": "true if the spark session is managed, false otherwise", + "paramRequired": false + }, + { + "paramName":"tn", + "paramLongName":"resultTableName", + "paramDescription": "the name of the result table we are currently working on", + "paramRequired": true + } +] \ No newline at end of file diff --git a/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters2.json b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters2.json new file mode 100644 index 000000000..1a67134a6 --- /dev/null +++ b/dhp-workflows/dhp-enrichment/src/main/resources/eu/dnetlib/dhp/wf/subworkflows/orcidtoresultfromsemrel/input_prepareorcidtoresult_parameters2.json @@ -0,0 +1,20 @@ +[ + { + "paramName":"s", + "paramLongName":"sourcePath", + "paramDescription": "the path of the sequencial file to read", + "paramRequired": true + }, + { + "paramName": "out", + "paramLongName": "outputPath", + "paramDescription": "the path used to store temporary output files", + "paramRequired": true + }, + { + "paramName": "ssm", + "paramLongName": "isSparkSessionManaged", + "paramDescription": "true if the spark session is managed, false otherwise", + "paramRequired": false + } +] \ No newline at end of file