D-Net
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489 Commits

Author SHA1 Message Date
Miriam Baglioni fe88904df0 changed the wf definition 2020-08-10 12:01:14 +02:00
Miriam Baglioni 87856467e2 removed isLookUpUrl and added code to read from HDSF the communitymap 2020-08-10 11:38:41 +02:00
Miriam Baglioni 1cf7043e26 removed isLookUoUrl from the parameters 2020-08-10 11:38:03 +02:00
Miriam Baglioni 46986aae2d added the new parameter for newdeposion/newversion and concept_record_id 2020-08-07 18:00:06 +02:00
Miriam Baglioni 3aedfdf0d6 added option to do a new deposition or new version of an old deposition 2020-08-07 17:49:14 +02:00
Miriam Baglioni 1b3ad1bce6 filter out authors pid (only orcid). Added check to get unique provenance for context id. filtr out countries with code UNKNOWN 2020-08-07 17:48:18 +02:00
Miriam Baglioni 5ceb8c5f0a moved constants from graph.Constants 2020-08-07 17:46:47 +02:00
Miriam Baglioni 6c65c93c0e refactoring 2020-08-07 17:45:35 +02:00
Miriam Baglioni 68adf86fe4 refactoring 2020-08-07 17:43:20 +02:00
Miriam Baglioni 26d2ad6ebb refactoring 2020-08-07 17:41:56 +02:00
Miriam Baglioni 9675af7965 refactoring 2020-08-07 17:41:07 +02:00
Miriam Baglioni 346a91f4d9 Added constants 2020-08-07 17:35:39 +02:00
Miriam Baglioni d52b0e1797 no use of IsLookUp. The query is done once and its result stored on HDFS. The path to the result is given instead of the isLookUpUrl 2020-08-07 17:34:40 +02:00
Miriam Baglioni ae1b7fbfdb changed method signature from set of mapkey entries to String representing path on file system where to find the map 2020-08-07 17:32:27 +02:00
Miriam Baglioni 545ea9f77e moved in common. Zenodo response model and APIClient to deposit in Zenodo 2020-08-07 16:44:51 +02:00
Miriam Baglioni da9b012c15 fixed dewcription 2020-08-06 11:55:44 +02:00
Miriam Baglioni 6dbadcf181 the new schema for the dumped result 2020-08-06 11:05:56 +02:00
Sandro La Bruzzo 4fb1821fab Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-08-06 10:28:31 +02:00
Sandro La Bruzzo 9d9e9edbd2 improved extractEntity Relation workflows using dataset 2020-08-06 10:28:24 +02:00
Miriam Baglioni 14eda4f46e added method to try to put inputstream to zenodo 2020-08-05 14:18:25 +02:00
Miriam Baglioni e737a47270 added classes to try to send input stream to zenodo for the upload 2020-08-05 14:17:40 +02:00
Miriam Baglioni 873e9cd50c changed hadoop setting to connect to s3 2020-08-04 15:37:25 +02:00
Alessia Bardi a29565ff57 code formatting 2020-08-04 12:55:27 +02:00
Alessia Bardi 01db29e208 fixes redmine issue #5846: datacite and its different namespace declarations 2020-08-04 12:53:48 +02:00
Alessia Bardi b4e4e5f858 do not duplicate result PIDs 2020-08-04 12:52:14 +02:00
Miriam Baglioni 5b651abf82 merge branch with master 2020-08-04 10:14:07 +02:00
Miriam Baglioni 901ae37f7b added step to workflow 2020-08-03 18:12:54 +02:00
Miriam Baglioni e43aeb139a added new property file and changed some parameter to old files 2020-08-03 18:07:28 +02:00
Miriam Baglioni aa9f3d9698 changed logic for save in s3 directly 2020-08-03 18:06:18 +02:00
Miriam Baglioni d465f0eec9 added fulltext to result 2020-08-03 18:03:27 +02:00
Miriam Baglioni c892c7dfa7 changed to query for community map just once and save the result for remaining executions 2020-08-03 17:56:31 +02:00
Michele Artini 652b13abb6 Merge branch 'master' into nsprefix_blacklist 2020-07-31 07:58:37 +02:00
Claudio Atzori cd631bb5bc defaults fixed in the cleaning workflow forces result.publisher to NULL when result.publisher.value in empty 2020-07-30 17:03:53 +02:00
Miriam Baglioni 57c87b7653 re-implemented to fix issue on not serializable Set<String> variable 2020-07-30 16:43:43 +02:00
Miriam Baglioni ef8e5957b5 added specific directory where to save results 2020-07-30 16:42:46 +02:00
Miriam Baglioni 75f3361c85 - 2020-07-30 16:41:31 +02:00
Miriam Baglioni 3f695b25fa refactoring 2020-07-30 16:40:15 +02:00
Miriam Baglioni e623f12bef refactoring 2020-07-30 16:32:59 +02:00
Miriam Baglioni ff7d05abb4 added support class to store the couple organizationId representativeId gaot from sql query on hive 2020-07-30 16:32:04 +02:00
Miriam Baglioni cf6d80b2ab added command to close the writer 2020-07-30 16:31:22 +02:00
Miriam Baglioni f985bca37b added USER_CLAIM constant value 2020-07-30 16:25:26 +02:00
Claudio Atzori 4bbfcf1ac6 Merge branch 'master' of https://code-repo.d4science.org/D-Net/dnet-hadoop 2020-07-30 16:25:06 +02:00
Claudio Atzori 4ff8007518 added function to set the missing vocabulary names, used in the cleaning workflow as a pre-cleaning step 2020-07-30 16:24:39 +02:00
Miriam Baglioni 6f1c40a933 - 2020-07-30 16:24:28 +02:00
Miriam Baglioni 2b66a93f9e added property file that was missing 2020-07-30 16:24:17 +02:00
Michele Artini bdece15ca0 blacklist of nsprefix 2020-07-30 16:13:38 +02:00
Sandro La Bruzzo c97c8f0c44 implemented new oozie job to extract entities in a separate dataset 2020-07-30 12:13:58 +02:00
Sandro La Bruzzo 3010a362bc updated changing in the workflow of provision in the phase of aggregation. Removed serialization in JSON RDD and used spark Dataset 2020-07-30 09:25:56 +02:00
Sandro La Bruzzo 16ae3c9ccf updated changing in the workflow of provision in the phase of aggregation. Removed serialization in JSON RDD and used spark Dataset 2020-07-30 09:25:32 +02:00
Miriam Baglioni 76bcab98ce added code to filter out null originalId from the dump 2020-07-29 18:28:21 +02:00
Miriam Baglioni 86bab79512 - 2020-07-29 18:20:22 +02:00
Miriam Baglioni 31791dcf3d fixed wrong property file path name 2020-07-29 18:20:08 +02:00
Miriam Baglioni 9e722aa1ef - 2020-07-29 18:00:08 +02:00
Miriam Baglioni d22f106f27 added constant to identify datasource associated to funders 2020-07-29 17:56:55 +02:00
Miriam Baglioni 40e194fe2f added check to not dump datasources related to funders 2020-07-29 17:56:18 +02:00
Miriam Baglioni b48934f6df changed the workflow name 2020-07-29 17:43:43 +02:00
Miriam Baglioni 074e9ab75e refactoring 2020-07-29 17:42:50 +02:00
Miriam Baglioni 8ad8dac7d4 merge branch with fork master 2020-07-29 17:38:28 +02:00
Miriam Baglioni 9fa82dc93b fixed issue 2020-07-29 17:36:16 +02:00
Miriam Baglioni 8907648d6a - 2020-07-29 17:35:47 +02:00
Miriam Baglioni 40a8dafbdc - 2020-07-29 17:30:44 +02:00
Miriam Baglioni 6d0f08277b classes to implement the dump of the whole graph. 2020-07-29 17:03:19 +02:00
Miriam Baglioni 8d4327b292 input parameters and workflow definition for the dump of the whole graph 2020-07-29 17:00:34 +02:00
Miriam Baglioni b5f995ab12 refactoring 2020-07-29 16:59:48 +02:00
Miriam Baglioni f7a87cc447 added new constants value 2020-07-29 16:58:40 +02:00
Miriam Baglioni b71d12cf26 refactoring 2020-07-29 16:52:44 +02:00
Miriam Baglioni a8d65b68cb changed to delete the part to check if it was a test or a real execution 2020-07-29 16:47:57 +02:00
Miriam Baglioni 3ec2392904 Added new class to move the place the split is effectively run 2020-07-29 16:46:50 +02:00
Miriam Baglioni 178c2729a7 changed the path to reach the java class to be executed 2020-07-29 12:29:51 +02:00
Miriam Baglioni 437ac12139 removed unused parameter 2020-07-29 12:28:16 +02:00
Miriam Baglioni 6c2223d1fc added code to get the openaire id for contexts 2020-07-24 17:30:15 +02:00
Miriam Baglioni afd54c1684 removed not needed upload and refactoring 2020-07-24 17:28:56 +02:00
Miriam Baglioni 7b0569d989 changed to map also the result associated to the whole graph 2020-07-24 17:28:11 +02:00
Miriam Baglioni 082225ad61 - 2020-07-24 17:27:26 +02:00
Miriam Baglioni 968c59d97a added teh logic to dump also the products for the whole graph. They will miss collected from and context information that will be materialized as new relations 2020-07-24 17:25:19 +02:00
Miriam Baglioni 332258d199 split the classes related to the communities dump and to the whole graph dump 2020-07-24 17:21:48 +02:00
Claudio Atzori 56bbfdc65d introduced parameter 'numParitions', driving the hive DB table data partitioning. Currently specified only for table 'project' 2020-07-23 08:54:10 +02:00
Claudio Atzori ebf60020ac map results as OPRs in case of missing //CobjCategory/@type and the vocabulary dnet:result_typologies doesn't resolve the super type 2020-07-20 19:01:10 +02:00
Miriam Baglioni 355d7e426e added dumo for project - not finished 2020-07-20 18:54:43 +02:00
Miriam Baglioni a2f01e5259 added getter and setter 2020-07-20 18:54:17 +02:00
Miriam Baglioni 40bbe94f7c merge with master fork 2020-07-20 18:10:03 +02:00
Miriam Baglioni 23160b4d29 realignment of the workflow classes with the changes in the structure of the module 2020-07-20 18:04:30 +02:00
Miriam Baglioni 08dbd99455 changed to dump the whole results graph by usign classes already implemented for communities. Added class to dump also organization 2020-07-20 17:54:28 +02:00
Miriam Baglioni e47ea9349c extended some types by adding provenance as the couple (provenance, trust) and moved some classes to be used by the complete graph dump also 2020-07-20 17:46:27 +02:00
Claudio Atzori 32f5e466e3 imports cleanup 2020-07-20 17:42:58 +02:00
Claudio Atzori 54ac583923 code formatting 2020-07-20 17:37:08 +02:00
Claudio Atzori 124e7ce19c in case of missing attribute //dr:CobjCategory/@type the resulttype is derived by looking up the vocabulary dnet:result_typologies with the 1st instance type available 2020-07-20 17:33:37 +02:00
Claudio Atzori 050dda223d Merge pull request 'removed duplicated fields' (#25) from unique_field_in_lists into master 
Looks good as a temporary workaround. I agree the model could seamlessly make the distinct operation by using HashSets instead of Linked (or Array) Lists.

The task to update the model in such a way is added on #9#issuecomment-1583

Thanks!
 2020-07-20 12:12:50 +02:00
Claudio Atzori e0c4cf6f7b added parameter to drive the graph merge strategy: priority (BETA|PROD) 2020-07-20 10:48:01 +02:00
Claudio Atzori 94ccdb4852 Merge branch 'master' into merge_graph 2020-07-20 10:14:55 +02:00
Michele Artini 331a3cbdd0 fixed originalId 2020-07-20 09:50:29 +02:00
Sandro La Bruzzo 9116d75b3e Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-07-17 18:01:30 +02:00
Miriam Baglioni 47c7122773 changed priority from beta to production 2020-07-17 12:56:35 +02:00
Michele Artini 442f30930c removed duplicated fields 2020-07-17 12:25:36 +02:00
Michele Artini 3adedd0a68 trust truncated to 3 decimals 2020-07-17 11:58:11 +02:00
Claudio Atzori 1781609508 code formatting 2020-07-16 19:06:56 +02:00
Claudio Atzori 878f2b931c Merge branch 'master' into merge_graph 2020-07-16 16:34:24 +02:00
Miriam Baglioni f9ad6f3255 Merge branch 'dump' of code-repo.d4science.org:miriam.baglioni/dnet-hadoop into dump 2020-07-10 19:42:53 +02:00
Miriam Baglioni c27f12d6e8 avoid to consider _SUCCESS file 2020-07-10 19:42:23 +02:00
Claudio Atzori 31071e363f Merge branch 'provision_indexing' 2020-07-10 19:03:57 +02:00
Claudio Atzori cc77446dc4 added dbSchema parameter to the raw_db workflow 2020-07-10 19:01:50 +02:00
Michele Artini e1ae964bc4 stats 2020-07-10 16:12:08 +02:00
Sandro La Bruzzo c01efed79b Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop 2020-07-10 14:44:57 +02:00
Sandro La Bruzzo a7d3977481 added generation of EBI Dataset 2020-07-10 14:44:50 +02:00
Claudio Atzori 67e1d222b6 bulk cleaning when found null or empty, sets bestaccessrights evaluating the result instances 2020-07-08 17:53:35 +02:00
Claudio Atzori 610d377d57 first implementation of the BETA & PROD graphs merge procedure 2020-07-08 16:54:26 +02:00
Alessia Bardi 8f83b726fa Dump json schema compliant to json schema Draft 7 2020-07-08 12:48:46 +02:00
Miriam Baglioni 1b0b968548 fixed issue on substring 2020-07-08 12:11:51 +02:00
Miriam Baglioni 7fe00cb4fb - 2020-07-08 10:29:37 +02:00
Miriam Baglioni 35c8265793 added the json extention to filename 2020-07-07 18:29:49 +02:00
Miriam Baglioni 81434f8e5e added method newInstance 2020-07-07 18:26:10 +02:00
Miriam Baglioni 8a1b42ff21 added check to verify that dump contains at least one product 2020-07-07 18:21:35 +02:00
Miriam Baglioni d86adb82a7 - 2020-07-07 18:20:51 +02:00
Miriam Baglioni b2782025f6 enabled the whole workflow to run. Added property to give priority to depenedency in the classpath - to solve conflicts 2020-07-07 18:10:47 +02:00
Miriam Baglioni 83d2c84b77 added constraints to xquery so that to get only profiles with status manager or all 2020-07-07 18:09:48 +02:00
Miriam Baglioni 4c8d86493c - 2020-07-07 18:09:06 +02:00
Miriam Baglioni f5bb65c9ef the json schema for the dump of the results 2020-07-07 17:34:40 +02:00
Miriam Baglioni c19818a3f8 merge branch with fork master 2020-07-06 13:58:23 +02:00
Miriam Baglioni d7f6f0c216 changed code to use other lib 2020-07-02 16:01:34 +02:00
Miriam Baglioni 94500a581b merge branch with fork master 2020-07-02 14:25:39 +02:00
Claudio Atzori ed1c7e5d75 fixed workflow for the import of the claims alone 2020-07-02 12:40:21 +02:00
Sandro La Bruzzo 1d420eedb4 added generation of EBI Dataset 2020-07-02 12:37:43 +02:00
Claudio Atzori e4a29a4513 fixed workflow for the import of the claims alone 2020-07-02 12:36:33 +02:00
Claudio Atzori 6f5771c1c9 sets author.rank when null 2020-06-25 14:06:21 +02:00
Claudio Atzori 2d77d3a388 Merge branch 'master' of https://code-repo.d4science.org/D-Net/dnet-hadoop 2020-06-25 12:54:30 +02:00
Miriam Baglioni 05a99cfb61 change the position of value and description elements in the workflow definition 2020-06-25 12:36:08 +02:00
Claudio Atzori 7df2712824 Merge branch 'provision_indexing' 2020-06-25 12:22:41 +02:00
Michele Artini abcbebcbb4 fixed generation of ids 2020-06-25 09:50:46 +02:00
Michele Artini 77d2a1b1c4 params to choose sql queries for beta or production 2020-06-25 09:28:13 +02:00
Claudio Atzori 0e723d378b added default from vocab for missing instance.refereed; remove spurious prefixes from orcid values; WIP: prepare relation job 2020-06-24 18:34:42 +02:00
Miriam Baglioni afa19b0c84 changed the way to PUT the files to the rest API 2020-06-22 17:20:07 +02:00
Miriam Baglioni df80ae5c1b merge branch with fork master 2020-06-22 10:51:23 +02:00
Miriam Baglioni e8f914f8b3 - 2020-06-22 10:50:41 +02:00
Miriam Baglioni 185facb8e5 change the deprecated DefaultHttpClient with the CLoseableHttpClient 2020-06-22 10:49:10 +02:00
Claudio Atzori 7d416f08d8 graph cleaning workflow: set hostedby to unknown repository when defined as NULL 2020-06-22 09:50:43 +02:00
Miriam Baglioni 669a509430 - 2020-06-19 17:39:46 +02:00
Claudio Atzori d0ac7514b2 cleaning workflow to include cleaning of default values 2020-06-18 19:37:25 +02:00
Miriam Baglioni 44a12d244f - 2020-06-18 18:38:54 +02:00
Miriam Baglioni fb80353018 - 2020-06-18 14:21:36 +02:00
Miriam Baglioni 65bf312360 merge branch with fork master 2020-06-18 11:35:27 +02:00
Miriam Baglioni f9578312b5 - 2020-06-18 11:34:15 +02:00
Miriam Baglioni e8b3e972f2 changed the input params and the workflow definition to tackle the Result as all result product produced 2020-06-18 11:25:05 +02:00
Miriam Baglioni 3233b01089 changes due to adding all the result type under Result 2020-06-18 11:22:58 +02:00
Miriam Baglioni bc8611a95a added new resources for testing 2020-06-18 11:19:20 +02:00
Sandro La Bruzzo 9bf67f5de1 resolved conflicts 2020-06-17 09:15:43 +02:00
Sandro La Bruzzo 1d4275acc4 implemented first version of exportation of Scholexplorer into ActionSet 2020-06-17 09:10:38 +02:00
Claudio Atzori 5441f01586 Merge pull request 'missing landingPage urls in instances' (#22) from instances-with-landing-page into master 
Looks good, thanks!
 2020-06-16 15:32:44 +02:00
Claudio Atzori 4ec262db53 included externalreference(s) in the result view on the Hive graph DB 2020-06-16 15:28:20 +02:00
Claudio Atzori 2a4f65795f WIP: graph cleaner implementation 2020-06-15 18:32:24 +02:00
Claudio Atzori c15c8c0ad0 map datasource identities (including piwik ids) as original IDs 2020-06-15 16:07:30 +02:00
Miriam Baglioni 9dd3ef22c5 merge branch with fork master 2020-06-15 11:23:26 +02:00
Miriam Baglioni e43eedb5b0 added resources and workflow for dump of community products 2020-06-15 11:13:21 +02:00
Miriam Baglioni f96ca900e1 fixed issues while running on cluster 2020-06-15 11:12:14 +02:00
Claudio Atzori 0d52816244 WIP: graph cleaner implementation 2020-06-13 13:06:04 +02:00
Claudio Atzori bed65a1be6 WIP: graph cleaner implementation 2020-06-12 18:25:47 +02:00
Claudio Atzori 463489f59f code formatting 2020-06-12 12:03:25 +02:00
Claudio Atzori 4bcad1c9c3 Merge branch 'graph_cleaning' 2020-06-12 11:40:25 +02:00
Claudio Atzori cdb1956fe9 WIP: graph cleaner implementation 2020-06-12 11:36:59 +02:00
Alessia Bardi b347499745 do not use deprecated subreltype 2020-06-12 10:58:02 +02:00
Claudio Atzori 97b1c4057c WIP: graph cleaner implementation 2020-06-12 10:45:18 +02:00
Claudio Atzori ba8a024af9 avoid NPEs merging titles 2020-06-12 10:45:11 +02:00
Miriam Baglioni a01800224c - 2020-06-11 13:02:04 +02:00
Miriam Baglioni 356dd582a3 map construction moved in class 2020-06-11 12:59:22 +02:00
Michele Artini a41e0cb648 missing landingPage urls in instances 2020-06-11 12:28:34 +02:00
Michele Artini 99f88e1cb8 fixed generation entities from claims 2020-06-11 10:51:57 +02:00
Miriam Baglioni db27663750 - 2020-06-11 10:49:01 +02:00
Claudio Atzori d1d92c4d8c fixed integration of claims in the graph 2020-06-11 10:12:00 +02:00
Claudio Atzori 953da4a427 Merge branch 'master' into graph_cleaning 2020-06-10 21:36:56 +02:00
Claudio Atzori f1bce64391 WIP: graph cleaner implementation 2020-06-10 21:36:31 +02:00
Michele Artini c08e66e01e fixed a workflow parameter 2020-06-10 10:11:56 +02:00
Michele Artini 7177a32d75 import of invisible stores 2020-06-10 10:04:00 +02:00
Claudio Atzori a2fdf85ba1 WIP: graph cleaner implementation 2020-06-09 19:52:53 +02:00
Claudio Atzori d9f33582c5 WIP: graph cleaner implementation 2020-06-09 17:20:40 +02:00
Miriam Baglioni a089db18f1 workflow and parameters to exucute the dump 2020-06-09 15:39:38 +02:00
Miriam Baglioni 6bbe27587f new classes to execute the dump for products associated to community, enrich each result with project information and assign the result to each community it belongs to 2020-06-09 15:39:03 +02:00
Miriam Baglioni 5121cbaf6a new classes for external dump. Only classes functional to dump products 2020-06-09 15:37:46 +02:00
Claudio Atzori b2349659cf WIP: graph property fixing implementation 2020-06-05 18:37:38 +02:00
Claudio Atzori 5e23fb3a74 code formatting 2020-05-30 10:52:56 +02:00
Claudio Atzori 54ca8ed6c3 uniformed param name (isLookupUrl), Vocab model classes defined as Serializable 2020-05-29 18:17:30 +02:00
Claudio Atzori 1577bd5b8b added IsLookupUrl to the raw_db workflow parameters 2020-05-29 16:18:16 +02:00
Michele Artini adb798faa5 import from db using is vocabularies 2020-05-29 12:03:51 +02:00
Michele Artini f5ce7d76e1 resolve conflicts 2020-05-27 12:49:17 +02:00
Michele Artini b81f2741d2 xquery 2020-05-27 12:10:20 +02:00
Michele Artini a25598140a result pids (new xpaths + IS vocabularies) 2020-05-27 12:10:20 +02:00
Michele Artini 7a7272d9ec result pids (new xpaths + IS vocabularies) 2020-05-27 12:10:20 +02:00
Michele Artini 3ceb2d2853 match terms with vocabularies 2020-05-27 11:34:13 +02:00
Michele Artini c15d997925 xquery 2020-05-26 13:13:17 +02:00
Michele Artini c6af36496a result pids (new xpaths + IS vocabularies) 2020-05-26 13:11:09 +02:00
Michele Artini 093f1aff03 result pids (new xpaths + IS vocabularies) 2020-05-26 13:06:55 +02:00
Miriam Baglioni d3d36647d2 merge upstream 2020-05-25 10:38:22 +02:00
Miriam Baglioni dbde2d243a changed due to move of PacePerson from dhp-graph-mapper to dhp-common 2020-05-25 10:35:39 +02:00
Miriam Baglioni 8f6ce970f9 moved PacePerson to dhp-common to avoid conflict in dependency with graph-mapper 2020-05-25 10:25:55 +02:00
Claudio Atzori de108f54d6 code formatting 2020-05-23 10:21:19 +02:00
Claudio Atzori 6b56cae57d added mapping for bestaccessrights 2020-05-23 09:57:39 +02:00
Claudio Atzori 3cf2796ac6 code formatting 2020-05-22 12:34:00 +02:00
Michele Artini dc4621b3cb filter ORCID e MAG identifiers 2020-05-22 12:25:01 +02:00
Michele Artini 9f2d0f1b08 filter ORCID e MAG identifiers 2020-05-22 11:00:27 +02:00
Michele Artini 9de71e54a8 filter ORCID e MAG identifiers 2020-05-22 10:47:39 +02:00
Michele Artini c5f7e17348 author fullnames 2020-05-22 10:08:02 +02:00
Michele Artini e43d4d7778 added a coalesce in sql query 2020-05-21 11:08:07 +02:00