{"id":2905,"date":"2017-05-26T16:41:18","date_gmt":"2017-05-26T16:41:18","guid":{"rendered":"https:\/\/notebooks.dataone.org\/?p=2905"},"modified":"2017-05-26T16:41:18","modified_gmt":"2017-05-26T16:41:18","slug":"week-1-update","status":"publish","type":"post","link":"https:\/\/notebooks.dataone.org\/prov-queries\/week-1-update\/","title":{"rendered":"Week-1-Update"},"content":{"rendered":"<p><span lang=\"en-US\">This is my first week for DataONE summer intern. I am glad to meet the mentors <\/span><span lang=\"zh-CN\">Bertram Ludaescher, Timothy McPhillips and Paolo<\/span> <span lang=\"zh-CN\">Missier<\/span><span lang=\"en-US\">. I am also happy to work on the project with another intern, Linh Hoang, who is a PhD student in iSchool of UIUC. She is warm-hearted and I have learned some tips of doing research from her.<\/span><\/p>\n<p><span lang=\"en-US\">Above all, the task of this intern project has been clarified to focus on YesWorkflow only. The objective is <\/span><span lang=\"zh-CN\">representing YW annotions, YW<\/span> <span lang=\"zh-CN\">workflow models, and YW-reconstructed retrospective provenance information in RDF<\/span><span lang=\"en-US\">, and developing SPARQL queries simialr to existing Prolog\/Datalog queries. During this week, I explored both the YW-prototype and YW-idcc-17 GitHub repositories, especially the simulate_data_collection example. I installed YW toolkit and its relevant dependent softwares on my PC and successfully executed the simple example task following README file. Then, I executed the simulate_data_collection example but came across some issues. With the help of my mentors and Linh, I solved most problems but some still remained to be solved. Generally, Linh and I got familiar with the whole process and structured commands of YW toolkit, and we designed a conceptual flow chart for YW toolkit to better understand it.<\/span><\/p>\n<p>In addition, I read some relevant published articles about this project and online tutorials about PROV, ProvONE, RDF and SPARQL. Based on the prior experience from Data Cleaning class of my mentor, I basically understood some concepts including prospective provenance, retrospective provenance, programs (@begin, @end), ports (@in, @out, @param), special recon annotations (@uri, @log), and others (@desc, @as, @return). Besides, I learned about the relations between PROV and ProvONE for scientific workflows provenance.<\/p>\n<p>I suppose the core task is to relate labelled elements in YW with ProvONE standard in RDF format. I will set about corresponding classes and associations with YW graph nodes and directed edges in the following weeks. Then, I am going to explore the extract_facts, model_facts and recon_facts in details.<\/p>\n<p>Hui<\/p>\n","protected":false},"excerpt":{"rendered":"<p>This is my first week for DataONE summer intern. I am glad to meet the mentors Bertram Ludaescher, Timothy McPhillips and Paolo Missier. I am also happy to work on the project with another intern, Linh Hoang, who is a PhD student in iSchool of UIUC. She is warm-hearted and <a class=\"more-link\" href=\"https:\/\/notebooks.dataone.org\/prov-queries\/week-1-update\/\">Continue reading <span class=\"screen-reader-text\">  Week-1-Update<\/span><span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":107,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[374],"tags":[],"_links":{"self":[{"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/posts\/2905"}],"collection":[{"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/users\/107"}],"replies":[{"embeddable":true,"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/comments?post=2905"}],"version-history":[{"count":3,"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/posts\/2905\/revisions"}],"predecessor-version":[{"id":2908,"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/posts\/2905\/revisions\/2908"}],"wp:attachment":[{"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/media?parent=2905"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/categories?post=2905"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/notebooks.dataone.org\/wp-json\/wp\/v2\/tags?post=2905"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}