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1062 Commits

Author SHA1 Message Date
Miriam Baglioni 8828458acf minor changes 2020-05-14 10:34:12 +02:00
Claudio Atzori ab37953332 added global properties in wf definitions to avoid repeating name-node and job-tracker in the (many) distcp actions; reintroduced output directory removal at the beginning of each spark action 2020-05-14 10:25:41 +02:00
Claudio Atzori 12bfa6702e Merge branch 'master' of https://code-repo.d4science.org/D-Net/dnet-hadoop 2020-05-13 17:01:17 +02:00
Claudio Atzori 5ecacad70a fixed default resource typing in Oaf/Odf mapping 2020-05-13 17:01:11 +02:00
Enrico Ottonello 12756f9d41 multithread (4 threads) test to feed elastic search 2020-05-13 16:11:40 +02:00
Michele Artini c0265213a0 partial implementation 2020-05-13 12:00:27 +02:00
Sandro La Bruzzo a92ee0f41e Merge remote-tracking branch 'origin/master' into doiboost 2020-05-13 10:38:13 +02:00
Sandro La Bruzzo d876f47d06 next step of MAG conversion implemented 2020-05-13 10:38:04 +02:00
Claudio Atzori 1ddd33de41 Merge branch 'master' of https://code-repo.d4science.org/D-Net/dnet-hadoop 2020-05-13 09:04:41 +02:00
Claudio Atzori 85f3c55992 fixed node names in blacklist workflow 2020-05-13 09:04:33 +02:00
Miriam Baglioni 43f127448d changed the package name from dhp-propagation to dhp-enrichment for the preparation phase of funding propagation 2020-05-12 18:24:26 +02:00
Enrico Ottonello 08040cef80 spark action to analyze orcid lambda file 2020-05-12 16:57:43 +02:00
Claudio Atzori ec0782e582 renamed jar containing the bulktagging and propagation workflows from dhp-[bulktagging|propagation] to dhp-enrichment; adjusted xml formatting 2020-05-12 15:49:28 +02:00
Miriam Baglioni 1547ca7e15 added blacklist step to the end of the provision wf 2020-05-12 12:17:27 +02:00
Miriam Baglioni 14979f299e changed the configuration factory 2020-05-12 11:28:38 +02:00
Miriam Baglioni f8aef6161a minor modification 2020-05-12 11:28:07 +02:00
Miriam Baglioni 7387f3449a changed the route to find the verb resolver classes 2020-05-12 11:27:38 +02:00
Miriam Baglioni 7687519f00 merged conflicts with upstream branch 2020-05-12 10:03:44 +02:00
Miriam Baglioni 8ffc050b8a fixed problem in communityconfigurationfactory test 2020-05-12 10:01:09 +02:00
Claudio Atzori 527e8169a8 adjusted paths pointing to test configurations, cleanup 2020-05-11 18:17:05 +02:00
Claudio Atzori f9a62ba63b added wf nodes to copy entities to the output path 2020-05-11 18:16:39 +02:00
Miriam Baglioni ad63effb4e removed deletion of working dir 2020-05-11 17:48:22 +02:00
Claudio Atzori c6b028f2af code formatting 2020-05-11 17:38:08 +02:00
Claudio Atzori 6d0b11252e bulktagging wfs moved into common dhp-enrichment module 2020-05-11 17:32:06 +02:00
Miriam Baglioni 50659011eb refactoring 2020-05-11 16:14:26 +02:00
Miriam Baglioni e883daf87e added the outputPath parameter and the reset path to remove the outputath directory 2020-05-11 16:10:24 +02:00
Miriam Baglioni 5ab3424c77 removed unused dependencies 2020-05-11 16:09:37 +02:00
Miriam Baglioni 6a3b081263 added the last step of blacklisteing 2020-05-11 16:09:20 +02:00
Enrico Ottonello 3b1a68cbf5 elastic search feed test 2020-05-11 14:53:52 +02:00
Enrico Ottonello f53e42bda7 merged 2020-05-11 14:49:28 +02:00
Enrico Ottonello 7990894454 different date format in lambda file parsing 2020-05-11 14:41:11 +02:00
Sandro La Bruzzo 0c6774e4da updated pom version 2020-05-11 14:35:14 +02:00
Miriam Baglioni bbc9b4f329 removed unused imports 2020-05-11 14:28:55 +02:00
Miriam Baglioni 757bae53ea removed unusefule serialization points 2020-05-11 14:28:37 +02:00
Miriam Baglioni b35d57a1ac added resources for test 2020-05-11 14:15:30 +02:00
Miriam Baglioni e563e65335 moved check from join to method 2020-05-11 14:11:44 +02:00
Sandro La Bruzzo b90609848b Merge remote-tracking branch 'origin/master' into doiboost 2020-05-11 14:08:31 +02:00
Sandro La Bruzzo 4062eafbdb merged from branch 2020-05-11 14:08:16 +02:00
Miriam Baglioni f5d785e096 used the DbClient moved in dhp-common 2020-05-11 13:59:42 +02:00
Miriam Baglioni 112b2cb3c3 added the test class 2020-05-11 13:58:58 +02:00
Miriam Baglioni 9a7ae523c9 update to version 1.2.1-SNAPSHOT 2020-05-11 13:57:47 +02:00
Miriam Baglioni 2abb84877d Merge branch 'master' into blacklist 2020-05-11 10:37:49 +02:00
Miriam Baglioni b0f0b24263 update to version 1.2.1-SNAPSHOT 2020-05-11 10:37:31 +02:00
Miriam Baglioni a7e91e23ba update to versione 1.2.1-SNAPSHOT 2020-05-11 10:34:30 +02:00
Miriam Baglioni bb59bdd60f merge upstream 2020-05-11 10:33:17 +02:00
Miriam Baglioni 5e3548add6 - 2020-05-11 10:33:08 +02:00
Miriam Baglioni dc8c8fa480 changed the version 2020-05-11 10:20:48 +02:00
Miriam Baglioni 871e079b45 merged with master 2020-05-11 10:20:00 +02:00
Claudio Atzori 60c40618d3 [maven-release-plugin] prepare for next development iteration 2020-05-11 10:17:14 +02:00
Claudio Atzori c267d958d5 [maven-release-plugin] prepare release dhp-1.2.0 2020-05-11 10:17:10 +02:00
Miriam Baglioni 622ba87ec2 changed the version 2020-05-11 10:10:36 +02:00
Miriam Baglioni 391b2399cc merge upstream 2020-05-11 10:08:51 +02:00
Claudio Atzori 42f1a2bf94 bumped project version to 1.2.0-SNAPSHOT 2020-05-11 10:05:57 +02:00
Sandro La Bruzzo 1412158a6f merged from branch 2020-05-11 09:45:50 +02:00
Miriam Baglioni 32301451ec merge upstream 2020-05-11 09:42:23 +02:00
Miriam Baglioni 7e66bc2527 fix a typo in the compression keyword and added some logging info in the spark job 2020-05-11 09:40:58 +02:00
Sandro La Bruzzo 1662f221f5 added test class 2020-05-11 09:39:11 +02:00
Sandro La Bruzzo 2b48a2c32c Merge branch 'doiboost' of code-repo.d4science.org:D-Net/dnet-hadoop into doiboost 2020-05-11 09:38:36 +02:00
Sandro La Bruzzo 4cebca09d2 start implementing MAG mapping 2020-05-11 09:38:27 +02:00
Spyros Zoupanos ae0f535c73 Fixing hardcoded reference to main openAIRE graph db 2020-05-09 22:34:48 +03:00
Claudio Atzori fd519df616 new rels produced by dedup workflow must be unique 2020-05-08 19:00:38 +02:00
Claudio Atzori 0ccc864ad9 [maven-release-plugin] prepare for next development iteration 2020-05-08 17:01:31 +02:00
Claudio Atzori 6e47c724c6 [maven-release-plugin] prepare release dhp-1.1.7 2020-05-08 17:01:27 +02:00
Claudio Atzori 5b28bb4131 code formatting 2020-05-08 16:49:47 +02:00
Claudio Atzori 8fd1952f16 code formatting 2020-05-08 16:01:09 +02:00
miconis 3420998bb4 reltype set in mergerels 2020-05-08 15:43:30 +02:00
Enrico Ottonello b9d126dd1f formatting modified after commit 2020-05-08 14:54:37 +02:00
Enrico Ottonello 7e1c987370 Merge branch 'doiboost' of https://code-repo.d4science.org/D-Net/dnet-hadoop into doiboost 2020-05-08 14:49:50 +02:00
Enrico Ottonello 9d812788e4 added job to download from orcid the records modified after a fixed date, the info are taken from last_modified.csv on hdfs 2020-05-08 14:49:39 +02:00
Miriam Baglioni 9a29ab7508 got back to the readPath we have before 2020-05-08 13:08:56 +02:00
Miriam Baglioni 28556507e7 - 2020-05-08 12:54:52 +02:00
Claudio Atzori b2192fdcdc simplified reset_outputpath nodes across the workflows, applied common xml formatting 2020-05-08 12:33:31 +02:00
Miriam Baglioni 4c94231cad merge with master fork 2020-05-08 12:25:57 +02:00
Miriam Baglioni 9b4c0d4b3a - 2020-05-08 11:51:45 +02:00
Miriam Baglioni 53952707b6 modified test because of new step of data preparation. It now expects to find ResultCountrySet serialization nstead of DatasourceCountry 2020-05-08 11:49:19 +02:00
Claudio Atzori 62ea19f1d3 introduced mapping for ExternalReferences, made urls defined within an instance unique 2020-05-08 09:43:26 +02:00
Claudio Atzori 8c67073a07 force speculative execution to false 2020-05-08 09:42:21 +02:00
Miriam Baglioni d6b9de9f46 Merge branch 'master' of https://code-repo.d4science.org/miriam.baglioni/dnet-hadoop 2020-05-07 18:22:59 +02:00
Miriam Baglioni f95d288681 fixed swithch of parameters 2020-05-07 18:22:32 +02:00
Claudio Atzori 166aafd936 heavy cleanup 2020-05-07 18:22:26 +02:00
Michele Artini ac0da5a7ee Partial implementation of broker events 2020-05-07 12:31:26 +02:00
Miriam Baglioni fb405275f7 merged with master 2020-05-07 11:48:21 +02:00
Miriam Baglioni e124278934 - 2020-05-07 11:47:11 +02:00
Claudio Atzori 5111671e62 celanup 2020-05-07 11:47:00 +02:00
Miriam Baglioni 9f8855991c changed Encorders.bean to Encoders.kryo 2020-05-07 11:44:35 +02:00
Miriam Baglioni 207b899d6d merged with upstream 2020-05-07 11:43:53 +02:00
Claudio Atzori 5b3f8a0e90 using Encoders.bean instead of kryo 2020-05-07 11:41:41 +02:00
Miriam Baglioni 182225becb Merge branch 'master' of https://code-repo.d4science.org/miriam.baglioni/dnet-hadoop 2020-05-07 11:38:17 +02:00
Miriam Baglioni 5efae3acb9 new workflow for job3 2020-05-07 11:38:10 +02:00
Claudio Atzori 73243793b2 Dataset based implementation for SparkCountryPropagationJob3 2020-05-07 11:15:24 +02:00
Claudio Atzori 128c3bf1c8 restored Author bean with simple getter/setter, author pid addition moved into dedicated implementation SparkOrcidToResultFromSemRelJob3 2020-05-07 11:14:56 +02:00
Miriam Baglioni b2fec32c87 new workflow for job3 2020-05-07 10:01:57 +02:00
Miriam Baglioni 29bc8c44b1 changes in the construction of new country set 2020-05-07 10:01:34 +02:00
Miriam Baglioni 55e825acd4 chenged the test according to changes in SparkCOuntryPropagationJob2 2020-05-07 10:01:00 +02:00
Miriam Baglioni 16193cf0ba new workflow and parameter for country propagation 2020-05-07 09:59:58 +02:00
Miriam Baglioni 5a476c7a13 chenged the xquery for the cfhb table 2020-05-07 09:58:17 +02:00
Miriam Baglioni 42ad51577a new implementation with one more serialization step 2020-05-07 09:57:49 +02:00
Claudio Atzori 17860d3ab6 general changes in the RAW graph mapping: missing collectedfrom/hostedby causes records to be skipped; factored out most of the constants in ModelConstants class (dhp-schemas) 2020-05-06 13:20:02 +02:00
Claudio Atzori fdfecc9578 Merge branch 'master' of https://code-repo.d4science.org/D-Net/dnet-hadoop 2020-05-06 11:28:01 +02:00
Claudio Atzori c79e2f5977 drop workingPath before starting the dedup workflow 2020-05-06 11:27:44 +02:00
Michele Artini 8f30a09d84 Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-05-05 17:12:22 +02:00
Michele Artini ccc609f909 new module for the production of broker events 2020-05-05 17:09:00 +02:00
Miriam Baglioni dd2e698a72 added a sequentialization step on the spark job. Addedd new parameter 2020-05-05 17:03:43 +02:00
Claudio Atzori 0825321d0b improved unit tests in dhp-aggregation 2020-05-05 12:39:04 +02:00
Miriam Baglioni 252b219dd5 chanced the name of some properties 2020-05-05 10:03:32 +02:00
Claudio Atzori 4a8487165c using long param names in wf definition 2020-05-04 19:19:29 +02:00
Claudio Atzori a2fc37df5f adjusted parameters 2020-05-04 19:18:59 +02:00
Claudio Atzori f1b7e14036 code formatting 2020-05-04 19:18:34 +02:00
Miriam Baglioni 78578c3ccf fixed wrong trnasition name in workflow 2020-05-04 15:46:24 +02:00
Miriam Baglioni cc7d9b6b19 merge upstream 2020-05-04 13:59:09 +02:00
Miriam Baglioni 3957c815b9 changed the name of some parameters 2020-05-04 13:58:52 +02:00
Miriam Baglioni e218360f8a changed code for the mode of DbClient and also removed the dependency to graph-mapper 2020-05-04 12:26:17 +02:00
Miriam Baglioni 31ea05297d moved the DbClient to common and added needed dependency to pom 2020-05-04 12:22:28 +02:00
miconis 085cf173d7 Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-05-04 12:08:20 +02:00
miconis 3df703f67d mergerels added to propagate relations 2020-05-04 12:08:12 +02:00
Claudio Atzori bac37b3973 fixed children expansion in XML records 2020-05-04 11:51:17 +02:00
Claudio Atzori 077ccd8743 stats wf properties cleanup 2020-05-04 11:41:46 +02:00
Miriam Baglioni b7dd400e51 added check if author.pid exists or is null 2020-05-01 15:09:02 +02:00
Miriam Baglioni dbf3ba051a minor 2020-04-30 20:22:07 +02:00
Miriam Baglioni 43053a286d workflow pom with added blacklist module 2020-04-30 18:30:21 +02:00
Miriam Baglioni 0631fe548a pom.xml 2020-04-30 18:29:46 +02:00
Miriam Baglioni 38ecfd5785 the wf with all the three steps for blacklisting relations 2020-04-30 18:28:46 +02:00
Miriam Baglioni 95433e1087 parameters for the preparation phase and blacklist phase 2020-04-30 18:28:13 +02:00
Miriam Baglioni 1070790c19 minor 2020-04-30 18:26:58 +02:00
Miriam Baglioni b9d56b3ced applies the actual removal of the relations 2020-04-30 18:26:25 +02:00
Miriam Baglioni d6d6ebeae5 preparation step: creates the subset of the merges relations 2020-04-30 18:25:33 +02:00
Miriam Baglioni 13f30664ea minor 2020-04-30 15:23:49 +02:00
Miriam Baglioni 276b95b7b3 add create file instruction 2020-04-30 15:05:17 +02:00
Miriam Baglioni 65a5d67b8b minor modifications 2020-04-30 14:45:27 +02:00
Miriam Baglioni 418595fec2 removed the saveGraph parameter 2020-04-30 14:45:00 +02:00
Miriam Baglioni ce8b1d0bc3 new workflow definition to be inserted in the provision pipeline 2020-04-30 14:38:54 +02:00
Miriam Baglioni 4b0bd91012 - 2020-04-30 12:45:28 +02:00
Miriam Baglioni 2349bfd8b8 changed the job test to remove the writeUpdate option 2020-04-30 11:43:33 +02:00
Sandro La Bruzzo 1e06bbaee8 fixed test 2020-04-30 11:38:58 +02:00
Miriam Baglioni 951517f9ec new input parameters and workflow definition to be used in the provision pipeline 2020-04-30 11:32:50 +02:00
Miriam Baglioni 026f297e49 removed the writeUpdate oprion 2020-04-30 11:31:59 +02:00
Sandro La Bruzzo b8e95295e2 merged from master 2020-04-30 11:27:59 +02:00
Miriam Baglioni c89fe762b1 modified relation datasource organization 2020-04-30 11:17:03 +02:00
Miriam Baglioni 3abb76ff7a merge with upstream 2020-04-30 11:15:54 +02:00
Michele Artini eb9bd42970 fixed a problem with journals 2020-04-30 11:06:05 +02:00
Miriam Baglioni 638a3c465b - 2020-04-30 11:05:17 +02:00
Michele Artini a0a6109bbc fixed a problem with journals 2020-04-30 11:03:46 +02:00
Miriam Baglioni 354f0162be changes in the blacklist and workflow definition 2020-04-30 10:26:50 +02:00
Claudio Atzori 439c6255a2 cleanup 2020-04-29 19:09:07 +02:00
Claudio Atzori 77ac995770 cleaned up poms, added descriptions 2020-04-29 18:44:17 +02:00
Miriam Baglioni 3cffee74b9 merge with upstream 2020-04-29 18:25:29 +02:00
Miriam Baglioni 9ab46535e7 pom with the new blacklist module added 2020-04-29 18:17:15 +02:00
Miriam Baglioni 6a47e6191d read from blacklist and write the result as relations on hdfs 2020-04-29 18:16:01 +02:00
Miriam Baglioni 869f576273 added hash map for relationship entityType id prefix, and relation inverse 2020-04-29 18:14:52 +02:00
Miriam Baglioni b85ad7012a reads the blacklist from the blacklist db and writes it as a set of relations on hdfs 2020-04-29 17:29:49 +02:00
Claudio Atzori 8fd81e863d added default value for the external_stats_db_name 2020-04-29 15:36:24 +02:00
Claudio Atzori c6f3ff4462 stats workflow content relocated into common package; added <global> property definitions in stats workflow.xml 2020-04-29 14:29:27 +02:00
Sandro La Bruzzo 4a89465740 reformatted code 2020-04-29 13:24:29 +02:00
Sandro La Bruzzo a6b1a59d0a merged with maaster 2020-04-29 13:20:57 +02:00
Sandro La Bruzzo 920c0f19c3 Merge branch 'doiboost' of code-repo.d4science.org:D-Net/dnet-hadoop into doiboost 2020-04-29 13:13:16 +02:00
Sandro La Bruzzo 09f161f1f4 implemented unit test 2020-04-29 13:13:02 +02:00
miconis e0d14fe4f8 Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-04-29 13:02:53 +02:00
miconis 0352d3b0ba entity dumps in dedup compressed 2020-04-29 13:02:34 +02:00
Michele Artini c43b4c8962 formatting 2020-04-29 12:56:58 +02:00
Michele Artini a5d7007005 Fix relations in migration 
Fix pom.xml in dhp-stats-update
 2020-04-29 12:05:41 +02:00
Miriam Baglioni f7695e833c resolved conflicts 2020-04-29 11:41:31 +02:00
Claudio Atzori 3616d0f88d Merge pull request 'Adding the stats workflow to the dnet-hadoop hierarchy' (#6) from spyros/dnet-hadoop:master into master 
Integrating stats update workflow.
 2020-04-29 10:35:02 +02:00
Claudio Atzori 964972d29a added data provision workflow definition WIP 2020-04-29 09:25:50 +02:00
Enrico Ottonello 1edcd53581 added shell actions to download all 11 activities files from ORCID 2020-04-28 20:25:09 +02:00
miconis 62e467eb0c assertion numbers updated to fit the new implementation of the pace-core 2020-04-28 11:46:23 +02:00
Claudio Atzori 6f5b899038 reformatted code according to the updated style descriptor 2020-04-28 11:23:29 +02:00
Claudio Atzori ac25f2d8d1 integrated changes from master 2020-04-28 08:55:28 +02:00
Miriam Baglioni 2980e50edf merge upstream 2020-04-27 15:06:48 +02:00
Claudio Atzori a0bdbacdae switched automatic code formatting plugin to net.revelc.code.formatter:formatter-maven-plugin 2020-04-27 14:52:31 +02:00
Claudio Atzori 7a3f8085f7 switched automatic code formatting plugin to net.revelc.code.formatter:formatter-maven-plugin 2020-04-27 14:45:40 +02:00
Michele Artini 1260d03eba skip empty projects 2020-04-27 13:51:13 +02:00
Miriam Baglioni df34a4ebcc changed the configuration to add ignorecase option to each verb related to covid-19 community 2020-04-27 12:32:56 +02:00
Miriam Baglioni 7a59324ccf changed the test to check for the new ignorecase option 2020-04-27 12:31:46 +02:00
Miriam Baglioni 986c97348d added the ignorecase option to each selection verb 2020-04-27 12:31:05 +02:00
Miriam Baglioni a303fc9f73 resources for testing propagation of result to comminuty from organization and from semrel 2020-04-27 11:14:16 +02:00
Miriam Baglioni c093d764a3 - 2020-04-27 11:12:38 +02:00
Miriam Baglioni c925e2be16 test for propagation of result to community from organization and result to community from semrel 2020-04-27 10:59:53 +02:00
Miriam Baglioni ec7f166690 changed the bl because of changed of the examples for the re implementation of the propagation step 2020-04-27 10:58:41 +02:00
Miriam Baglioni 6135096ef1 refactoring 2020-04-27 10:57:50 +02:00
Miriam Baglioni d30e710165 fixed duplicates action name in the workflow 2020-04-27 10:52:30 +02:00
Miriam Baglioni f9ee343fc0 new parametrized workflow with preparation steps and new parameter input files 2020-04-27 10:48:31 +02:00
Miriam Baglioni e2093644dc changed in the workflow the directory where to store the preparedInfo and the graph genearated at this step 2020-04-27 10:46:44 +02:00
Miriam Baglioni 8a58bf2744 removed the writeUpdate option 2020-04-27 10:45:06 +02:00
Miriam Baglioni 5dccbe13db merge with upstream 2020-04-27 10:43:59 +02:00
Miriam Baglioni 7b6505ec69 new resuorces for testing propagation of project to result after the re-implementation 2020-04-27 10:42:16 +02:00
Miriam Baglioni 1b0e0bd1b5 refactoring 2020-04-27 10:40:26 +02:00
Miriam Baglioni e5a177f0a7 refactoring 2020-04-27 10:36:21 +02:00
Miriam Baglioni e000754c92 refactoring 2020-04-27 10:34:03 +02:00
Miriam Baglioni 95a54d5460 removed the writeUpdate option. The update is available in the preparedInfo path 2020-04-27 10:30:32 +02:00
Miriam Baglioni 8802e4126b re-implemented inverting the couple: from (projectId, relatedResultList) to (resultId, relatedProjectList) 2020-04-27 10:26:55 +02:00
Enrico Ottonello a1861b9eaa workflow works in parallel on 2 activity files 2020-04-24 18:33:37 +02:00
Enrico Ottonello 941e94af06 added workflow for generating authors with dois data sequence file 2020-04-24 15:50:40 +02:00
Claudio Atzori 268462623a refined definition of equals and hash methods for Oaf model classes, now based on entity identifier, while relations consider sourceid, targetid and relationship semantic; Factored out function to group Oaf objects in grouping operations; Raw graph creation procedure merges entities and relationships providing the same identity 2020-04-24 14:42:01 +02:00
Claudio Atzori a3e480d1c9 implmented DispatchEntitiesApplication using spark2 datasets 2020-04-24 14:36:53 +02:00
Claudio Atzori 48157e0fc4 GraphHiveImporterJob moved in dedicate package 2020-04-24 14:32:28 +02:00
Miriam Baglioni adcbf0e29a refactoring 2020-04-24 10:47:43 +02:00
Claudio Atzori 278fc9d276 code formatting 2020-04-23 18:51:38 +02:00
miconis 5414236644 Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-04-23 18:17:23 +02:00
miconis 8d258c85ff spark dedup test fixed, sample for dataset and orp added, test implemented 2020-04-23 18:16:20 +02:00
Michele Artini 072eae3803 fixed a problem with missing contexts 2020-04-23 16:42:49 +02:00
Michele Artini b164d96874 Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-04-23 16:19:16 +02:00
Michele Artini d920ce501e fixed a problem with missing instances 2020-04-23 16:18:40 +02:00
Miriam Baglioni 0e447add66 removed unuseful classes 2020-04-23 12:59:43 +02:00
Miriam Baglioni edb00db86a refactoring 2020-04-23 12:57:35 +02:00
Miriam Baglioni 44fab140de - 2020-04-23 12:42:07 +02:00
Miriam Baglioni 769aa8178a refactoring 2020-04-23 12:40:44 +02:00
Miriam Baglioni d8dc31d4af refactoring 2020-04-23 12:35:49 +02:00
Miriam Baglioni 8c5dac5cc3 removed unuseful classes 2020-04-23 12:30:58 +02:00
Miriam Baglioni 15656684b9 added proeprties for the preparation step and actual propagation. Added the new parametrized workflow 2020-04-23 12:13:34 +02:00
Miriam Baglioni 6f35f5ca42 added the steps of reset output dir and copy information not changed by the propagation step 2020-04-23 12:12:07 +02:00
Miriam Baglioni 19cd5b85c0 changed the classname to execute 2020-04-23 12:07:41 +02:00
Miriam Baglioni fa2ff5c6f5 refactoring 2020-04-23 11:58:26 +02:00
Miriam Baglioni 540f70298b added missing property 2020-04-23 11:51:48 +02:00
Miriam Baglioni e431fe4f5b added the implements Serializable to each class 2020-04-23 11:48:47 +02:00
Miriam Baglioni 24fa81d7e8 implementation parametrized for result type 2020-04-23 11:44:19 +02:00
Miriam Baglioni ab2a24cc2b changed the dependency to use reflections to find annotated classes 2020-04-23 11:08:47 +02:00
Miriam Baglioni 5153d88bd3 defiition of workflow and properties for bulktagging 2020-04-23 11:04:53 +02:00
Miriam Baglioni 3b2e4ab670 test for bulktag 2020-04-23 10:00:10 +02:00
Sandro La Bruzzo fdc0523e4c Merge remote-tracking branch 'origin/master' into doiboost 2020-04-23 09:34:13 +02:00
Sandro La Bruzzo 4ba386d996 improved crossref mapping 2020-04-23 09:33:48 +02:00
Claudio Atzori 8851050814 replaced hive_db_name with hiveDbName 2020-04-23 08:36:40 +02:00
Claudio Atzori 91f81107b1 applying code formatting 2020-04-23 07:52:32 +02:00
Claudio Atzori 1e7583c5a6 filtered invisible records in data provision workflow 2020-04-23 07:51:34 +02:00
Claudio Atzori 9ddafd46ca fixed dedup record id prefix, set the correct dataInfo in the DedupRecordFactory 2020-04-23 07:50:18 +02:00
Claudio Atzori ade4cb97af fixed parameters passed to the postprocessing action in the workflow mapping the graph as hive DB 2020-04-22 18:24:06 +02:00
Sandro La Bruzzo bb6c9785b4 Merge remote-tracking branch 'origin/master' into doiboost 2020-04-22 15:00:57 +02:00
Sandro La Bruzzo 157915988c improved crossref mapping 2020-04-22 15:00:44 +02:00
Enrico Ottonello 5977f08e92 merged 2020-04-22 14:50:50 +02:00
Enrico Ottonello 7d759947ae used vtd for parsing orcid xml record, set 4g heapspace 2020-04-22 14:41:19 +02:00
Claudio Atzori e81960335c Merge branch 'master' of https://code-repo.d4science.org/D-Net/dnet-hadoop 2020-04-22 10:46:37 +02:00
Michele Artini 9e4d58f505 ResultType 2020-04-22 10:07:26 +02:00
Claudio Atzori c891661822 small adjustments in the graph2hive workflow 2020-04-21 18:52:23 +02:00
Miriam Baglioni 259525cb93 Merge remote-tracking branch 'upstream/master' 2020-04-21 18:33:46 +02:00
Miriam Baglioni 30e53261d0 minor 2020-04-21 18:00:53 +02:00
Claudio Atzori 0b55795d4d small adjustments in the provisioning workflow 2020-04-21 16:15:04 +02:00
Claudio Atzori 88fbb3a353 added sparkSqlWarehouseDir to the default extra spark options passed to each workflow 2020-04-21 16:13:43 +02:00
Claudio Atzori cd320efa96 added extra spark options to graph to hive workflow 2020-04-21 16:12:20 +02:00
Miriam Baglioni 90c768dde6 added shaded libs module 2020-04-21 16:03:51 +02:00
Claudio Atzori 91e72a6944 Dataset based implementation for SparkCreateDedupRecord phase, fixed datasource entity dump supplementing dedup unit tests 2020-04-21 12:06:08 +02:00
miconis 5c9ef08a8e spark dedup test fixed 2020-04-21 10:19:04 +02:00
Sandro La Bruzzo 3624947a7f Merge remote-tracking branch 'origin/master' into doiboost 2020-04-21 08:34:24 +02:00
Claudio Atzori d772d967aa restored changes from master branch 2020-04-20 18:53:06 +02:00
Claudio Atzori eb8a020859 fixed behaviour of DedupRecordFactory 2020-04-20 18:44:06 +02:00
Sandro La Bruzzo 039f9b7871 Merge remote-tracking branch 'origin/master' into doiboost 2020-04-20 18:10:29 +02:00
Sandro La Bruzzo e4b105cece improved crossref mapping 2020-04-20 18:10:07 +02:00
Claudio Atzori ede1af3d85 Merge branch 'master' into deduptesting 2020-04-20 16:52:14 +02:00
miconis 1102e32462 SparkDedupTest updated and organization dump fixed 2020-04-20 16:49:01 +02:00
Claudio Atzori 667d23c58b finalising Actionset migration workflow 2020-04-20 16:45:21 +02:00
miconis 4da13e4570 Revert "Merge branch 'master' into deduptesting" 
This reverts commit 772f75d167, reversing
changes made to 5f45f2c77f.
 2020-04-20 16:04:49 +02:00
Claudio Atzori 9147af7fed actionsets migration workflow moved in dhp-workflows/dhp-actionmanager 2020-04-20 15:24:33 +02:00
miconis 772f75d167 Merge branch 'master' into deduptesting 2020-04-20 14:50:12 +02:00
Sandro La Bruzzo 5d46ec7d5f fixed name of wrong package 2020-04-20 14:49:32 +02:00
Sandro La Bruzzo 82cc3b707d fixed name of wrong package 2020-04-20 14:47:06 +02:00
Sandro La Bruzzo b2c872cb4d merged master 2020-04-20 14:04:40 +02:00
Sandro La Bruzzo 7029942e06 Merge branch 'doiboost' of code-repo.d4science.org:D-Net/dnet-hadoop into doiboost 2020-04-20 13:26:41 +02:00
Sandro La Bruzzo 0e45f4d450 continue mapping from crossref to OAF 2020-04-20 13:26:29 +02:00
Enrico Ottonello a466648b4b renamed output file 2020-04-20 12:32:03 +02:00
Claudio Atzori d714bfb4d4 collectedfrom field moved in common parent class Oaf.java 2020-04-20 12:25:19 +02:00
Enrico Ottonello 4ae55e3891 added workflow parameters 2020-04-20 12:00:04 +02:00
Michele Artini 8ff7facfa3 fixed collectedFrom ID 2020-04-20 11:09:27 +02:00
Sandro La Bruzzo eef60bb9f4 created structure of oozie wf for ORCID 2020-04-20 10:24:57 +02:00
Sandro La Bruzzo 4d0d9de07e reorganized package and fixed test 2020-04-20 10:02:42 +02:00
Sandro La Bruzzo 618bc1fc72 first implementation of crossrefMapping 2020-04-20 09:53:34 +02:00
Michele Artini 25307965d2 add a default datainfo if missing 2020-04-20 09:43:27 +02:00
Michele Artini d2058fdc47 tests 2020-04-20 09:31:14 +02:00
Enrico Ottonello 1d44a359ea renamed package folder 2020-04-20 09:25:40 +02:00
Michele Artini 478a958f09 tests 2020-04-20 09:15:27 +02:00
Miriam Baglioni e1848b7603 minor 2020-04-18 14:16:42 +02:00
Miriam Baglioni 0ff9b1ef05 added needed parameter 2020-04-18 14:16:29 +02:00
Miriam Baglioni e2dfe8b656 removed not used action 2020-04-18 14:16:07 +02:00
Miriam Baglioni 437ebbad76 refactorign 2020-04-18 14:15:09 +02:00
Miriam Baglioni 9a8876ac86 added needed parameter 2020-04-18 14:14:08 +02:00
Miriam Baglioni 9854852878 refactoring 2020-04-18 14:13:16 +02:00
Miriam Baglioni 454b8a6a29 Merge remote-tracking branch 'upstream/master' 2020-04-18 14:09:44 +02:00
Miriam Baglioni 890ec28f0f input parameters for preparation step1 2020-04-18 14:09:37 +02:00
Miriam Baglioni fbf5c27c27 Added preparation classes before actual propagation 2020-04-18 14:09:03 +02:00
Claudio Atzori 5f45f2c77f Merge branch 'master' into deduptesting 2020-04-18 12:46:40 +02:00
Claudio Atzori ad7a131b18 introduced common project code formatting plugin, works on the commit hook, based on https://github.com/Cosium/git-code-format-maven-plugin, applied to each java class in the project 2020-04-18 12:42:58 +02:00
Claudio Atzori a2938dd059 cleanup 2020-04-18 12:24:22 +02:00
Claudio Atzori 9374ff03ea Merge branch 'master' into deduptesting 2020-04-18 12:06:58 +02:00
Claudio Atzori 71813795f6 various refactorings on the dnet-dedup-openaire workflow 2020-04-18 12:06:23 +02:00
Enrico Ottonello 7011d4203e parser of orcid summaries from tar gz file on hdfs, that creates a sequence file with authors informations (oid, name, surname, credit name) 2020-04-17 18:52:39 +02:00
miconis 6450bb0daa test for softwares dedup added. definition of orp, dataset and sw dedup configurations 2020-04-17 17:31:59 +02:00
Miriam Baglioni 72c63a326e removed unuseful class 2020-04-17 17:14:51 +02:00
Miriam Baglioni 00c2ca3ee5 - 2020-04-17 17:14:25 +02:00
Miriam Baglioni 5cd092114f use mergeFrom method to add the new community contexts 2020-04-17 17:13:18 +02:00
Miriam Baglioni 264c82f21e minor 2020-04-17 16:54:46 +02:00
Miriam Baglioni 8c079c7a49 unit test for orcid to result propagation from semrel 2020-04-17 16:53:03 +02:00
Miriam Baglioni eacd140a98 added missing parameter(s) 2020-04-17 16:52:30 +02:00
Miriam Baglioni 390e250faf use the addPid method of the Author class to add a new pid 2020-04-17 16:52:02 +02:00
Miriam Baglioni b46b080ddc use mergeFrom method call to add the country(ies) instead of modify the result directly. 2020-04-17 16:50:54 +02:00
Miriam Baglioni c4987dd12a minor 2020-04-17 16:49:08 +02:00
Claudio Atzori 038ac7afd7 relation consistency workflow separated from dedup scan and creation of CCs 2020-04-17 13:12:44 +02:00
Claudio Atzori c92bfeeaee Merge branch 'master' of https://code-repo.d4science.org/D-Net/dnet-hadoop 2020-04-17 13:07:52 +02:00
Miriam Baglioni adc11c97a7 Merge remote-tracking branch 'upstream/master' 2020-04-17 12:34:31 +02:00
Sandro La Bruzzo a329ea5575 merged with master branch 2020-04-17 12:23:54 +02:00
Sandro La Bruzzo 01ea7721f3 Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-04-17 12:12:25 +02:00
Sandro La Bruzzo 5e2fa996aa fixed problem with conversion of long into string 2020-04-17 12:11:51 +02:00
miconis 418cf94642 implementation of the deletedbyinference test in propagating relations 2020-04-17 10:40:21 +02:00
Miriam Baglioni 5d772e5263 new implementation of propagation of community to result from organization that exploits the prepared info 2020-04-16 18:45:22 +02:00
Miriam Baglioni fff1e5ec39 classes to (de)serialize the data provided in the preparation step 2020-04-16 18:44:43 +02:00
Miriam Baglioni 3fd9d6b02f preparation phase for the propagation of community to result from organization 2020-04-16 18:43:55 +02:00
Miriam Baglioni a9120164aa added hive parameter and a step of reset of the working dir in the workflow 2020-04-16 18:42:04 +02:00
Miriam Baglioni 6afbd542ca changed the save mode to avoid NegativeArraySize... error. Needed to modify also the preparationstep2 2020-04-16 18:40:14 +02:00
Miriam Baglioni d60fd36046 changed the save method 2020-04-16 16:14:15 +02:00
Miriam Baglioni 951b13ac46 input parameters and workflow for new implementation of propagation of orcid to result from semrel and preparation phases 2020-04-16 16:13:10 +02:00
Miriam Baglioni 4d89f3dfed removed unuseful classes 2020-04-16 16:11:44 +02:00
Miriam Baglioni 5e72a51f11 - 2020-04-16 16:11:20 +02:00
Miriam Baglioni c33a593381 renamed 2020-04-16 16:09:47 +02:00
Miriam Baglioni 0e5399bf74 seconf phase of data preparation. Groups all the possible updates by id 2020-04-16 16:08:51 +02:00
Miriam Baglioni 548ba915ac first phase of data preparation. For each result type (parallel) it produces the possible updates 2020-04-16 15:58:42 +02:00
Miriam Baglioni 243013cea3 to (de)serialize the association from the resultId and the list of autoritative authors with orcid to possibly propagate 2020-04-16 15:57:29 +02:00
Miriam Baglioni ac3ad25b36 to (de)serialize needed information of the author to determine if the orcid can be passed (name, surname, fullname (?), orcid) 2020-04-16 15:56:33 +02:00
Miriam Baglioni d6cd700a32 new implementation that exploits prepared information (the list of possible updates: resultId - possible list of orcid to be added 2020-04-16 15:55:25 +02:00
Miriam Baglioni f077f22f73 minor 2020-04-16 15:54:16 +02:00
Miriam Baglioni fd5d792e35 refactoring 2020-04-16 15:53:34 +02:00
Claudio Atzori cb0952428e Merge branch 'master' into deduptesting 2020-04-16 14:42:25 +02:00
Claudio Atzori cc21bbfb1a Merge branch 'deduptesting' of https://code-repo.d4science.org/D-Net/dnet-hadoop into deduptesting 2020-04-16 14:41:37 +02:00
Claudio Atzori ec5dfc068d added spark.sql.shuffle.partitions=3840 to dedup scan wf 2020-04-16 14:41:28 +02:00
Claudio Atzori 09f356b047 Merge pull request 'Closes #7: subdirs inside graph table dirs' (#8) from przemyslaw.jacewicz/dnet-hadoop:przemyslawjacewicz_7_distcp_configuration_fix into master 
Run the code from this PR in isolation and it worked fine. Thanks!
 2020-04-16 14:38:46 +02:00
Claudio Atzori 3437383112 Merge branch 'master' into deduptesting 2020-04-16 12:46:14 +02:00
miconis 0eccbc318b Deduper class (utilities for dedup) cleaned. Useless methods removed 2020-04-16 12:36:37 +02:00
Claudio Atzori 76d23895e6 Merge branch 'deduptesting' of https://code-repo.d4science.org/D-Net/dnet-hadoop into deduptesting 2020-04-16 12:18:32 +02:00
miconis 6a089ec287 minor changes 2020-04-16 12:15:38 +02:00
Claudio Atzori 376efd67de removed prepare statement in spark action 2020-04-16 12:14:16 +02:00
miconis 9b36458b6a Merge branch 'deduptesting' of code-repo.d4science.org:D-Net/dnet-hadoop into deduptesting 2020-04-16 12:13:58 +02:00
miconis cd4d9a148f creating temporary directories in dedup test 2020-04-16 12:13:26 +02:00
Claudio Atzori b39ff36c16 improving the wf definitions 2020-04-16 12:11:37 +02:00
Claudio Atzori 011b342bc9 trying to avoid OOM in SparkPropagateRelation 2020-04-16 11:13:51 +02:00
Miriam Baglioni 08227cfcbd resources needed for running the test on propagation of result to organization from institutional repositories 2020-04-16 11:06:10 +02:00
Miriam Baglioni a97e915c24 test unit for propagation of result to organization from institutional repository 2020-04-16 11:05:21 +02:00
Miriam Baglioni b078710924 modification to the test due to the removal of unused parameters 2020-04-16 11:04:39 +02:00
Miriam Baglioni a5e5c81a2c input parameters and workflow definition for propagation of result to organization from institutional repositories 2020-04-16 11:03:41 +02:00
Miriam Baglioni 5e1bd67680 removed unuseful parameter 2020-04-16 11:02:01 +02:00
Miriam Baglioni eaf19ce01b removed unuseful class 2020-04-16 10:59:33 +02:00
Miriam Baglioni 7bd49abbef commit to delete 2020-04-16 10:59:09 +02:00
Miriam Baglioni 53f418098b added the isTest checkpoint 2020-04-16 10:53:48 +02:00
Miriam Baglioni c28333d43f minor 2020-04-16 10:52:50 +02:00
Miriam Baglioni a8100baed6 changed the way to save the results to aviod NegativeArray... error 2020-04-16 10:50:09 +02:00
Miriam Baglioni 79b978ec57 refactoring 2020-04-16 10:48:41 +02:00
Claudio Atzori 069ef5eaed trying to avoid OOM in SparkPropagateRelation 2020-04-15 21:23:21 +02:00
Claudio Atzori 8eedfefc98 try to introduce intermediate serialization on hdfs to avoid OOM 2020-04-15 18:35:35 +02:00
Przemysław Jacewicz da019495d7 [dhp-actionmanager] target dir removal added for distcp actions 2020-04-15 17:56:57 +02:00
miconis 5689d49689 minor changes 2020-04-15 16:34:06 +02:00
Claudio Atzori c439d0c6bb PromoteActionPayloadForGraphTableJob reads directly the content pointed by the input path, adjusted promote action tests (ISLookup mock) 2020-04-15 16:18:33 +02:00
Claudio Atzori ff30f99c65 using newline delimited json files for the raw graph materialization. Introduced contentPath parameter 2020-04-15 16:16:20 +02:00
Sandro La Bruzzo 3d3ac76dda Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-04-15 15:24:01 +02:00
Sandro La Bruzzo 74a7fac774 fixed problem with timestamp 2020-04-15 15:23:54 +02:00
Miriam Baglioni 3577219127 removed unuseful classes 2020-04-15 12:45:49 +02:00
Miriam Baglioni 964b22d418 modified the writing of the new relations. before: read old rels, add the new ones to them, write all the relations in new location. Now: first step of the wf copies the old relation i new location. If new relations are found, they are saved in the new location in append mode. 2020-04-15 12:32:01 +02:00