Weekly Report By: Devin Trejo Week of July 6, 2015-> July 12, 2015

Previous Goals WE2 Workshop Isip security cleared and domain name responding on world wide web. Purchase hardware for cluster!? Create a list of compensation budget management issues that need to be address. Finish 2014 NEDC Corpus.

Accomplishments WE2 Workshop Budget Met with Dr. Picone to calculate fringe benefits. We balanced the compensation budget sheets to date.

Accomplishments ISIP Website: No accomplishment Still waiting for security approval to get the server on public domain. Git Web server is waiting for IT security approval -> couldn't thoroughly test the environment. Main boot drive throwing SMART errors

Accomplishments (cont.) Cluster Finalized the compute cluster build configuration Contacted several vendors (to get the best deal possible). WebEx session w/ Dr. Picone to discuss cluster serial job parallelization across nodes. If you specify a job to run on nodes=3:ppn=2 and submit a PBSJOB script with multiple serial jobs it will run on one node exclusively. The other two nodes will sit idle and the job schuelder will not submit new jobs to those idle nodes. If you set the ppn=2 while the node has 4 cores and submit multiple serial jobs use a PBSJOB script, it will run on all four codes on the node. The job scheduler doesn't restrict core usage for a job even when specifying a ppn count. I'm currently experimenting currently with a OpenMPI/pbsdsh approach to running multiple serial jobs in parallel.

Accomplishments (cont.) NEDC Spell check for 2014 is done. Copied in 16 out of 44 new CDs. These are for release_2015 book_17. Status: Reports: Session Count AccessmModalHCMissing Release_ (2977 w/ Reports) Release_ (458 w/ Reports) #FunctionDescriptionStatus 1st PassStatus 2nd Pass 1 chck_mrnsFinds: No. Records Found, Duplicate MRNs, Multiple MRNsDone 05/18/2015 Done 05/26/ check_fnamesChecks file_name syntax (Len(MRN)=8, Len(Date)=8, appendix)Done 05/18/2015 Done 05/26/ check_dirsChecks to ensure we have all necessary files in a directoryDone 05/19/2015 Done 05/26/ check_prerelease outputs the files we need to exist in each directory Done 05/25/2015 Done 05/26/ check_namesCompares names in NPA to reportsDone 05/25/2015 Done 05/26/ check_egChecks to see if de-identified = sourceDone 05/25/2015 Done 05/26/ word_frequencyA tool to look for patient names, ectN/A Done 05/26/ spell_checkSpell check the reportsN/A Done 07/09/ check_special_wordsChecks for special words that correlate to identifiable informationN/A Done 05/27/2015

New Goals WebServer Webserver security checked. GitLab test NEDC Rerun all the checks on 2014, including check_mrms across the entire database, to make sure we didn't miss anything. Digitize and store the new CDs Move forward on 2015 Cluster Purchase hardware for cluster!? (week2) Test further ways to parallelize jobs across multiple nodes. Poster