Update sophia script#1242
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* push msk_solid_heme to s3 bucket * error message if failed to upload to s3 * changed s3 upload so deleted files are removed -- but not previous versions * sending 8 mskimpact subdirectories to s3 * transpose CNA table for msk_solid_heme for databricks * updated s3 functions and start of removing git from fetch * upload entire dmp directory * exclude log, jfr, and repository.sqlite files from s3 upload * merge private dirs into public dirs - s3 bucket is private * exclude git files from s3 buckets * removed TODO statements (all done) * fixing a few bugs * removed trailing slashes on directory s3 sync that were creating a subdirectory in s3 * do not do a git rm for files not in git anymore, use s3 in merge-cdm-data.sh * Update dmp-import-vars-functions.sh update for consume to use main repo instead of private --------- Co-authored-by: averyniceday <wanga5@mskcc.org>
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