SHOW:
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- or go back to the newest paste.
| 1 | ##################################### | |
| 2 | # get the condor dir with examples | |
| 3 | ||
| 4 | - | cp -r /data/BDP1_2020/condor/ . |
| 4 | + | cp -r /data/BDP1_2019/condor/ . |
| 5 | cd condor | |
| 6 | ##################################### | |
| 7 | ||
| 8 | #### inspect files ################## | |
| 9 | #### for first example ############## | |
| 10 | cat myexec.sh | |
| 11 | cat world.txt | |
| 12 | vim first_batch.job | |
| 13 | ##################################### | |
| 14 | ||
| 15 | ######### check the condor cluster### | |
| 16 | condor_status | |
| 17 | ###################################### | |
| 18 | ||
| 19 | ||
| 20 | # now the condor submission ######### | |
| 21 | condor_submit first_batch.job | |
| 22 | ||
| 23 | ### check job status ################ | |
| 24 | condor_q | |
| 25 | condor_q -better-analyze | |
| 26 | condor_q -better-analyze < jobID > | |
| 27 | - | condor_history < jobID > #for already done jobs |
| 27 | + | |
| 28 | ||
| 29 | ### inspect out files ################ | |
| 30 | cat file1out | |
| 31 | cat file2out | |
| 32 | less condor.out | |
| 33 | less condor.log | |
| 34 | less condor.error | |
| 35 | ||
| 36 | ||
| 37 | ################ now the HG example with bwa ############### | |
| 38 | ############################################################# | |
| 39 | ||
| 40 | cd hg | |
| 41 | vim align.py | |
| 42 | vim bwa_batch.job | |
| 43 | less condor.error | |
| 44 | less condor.log | |
| 45 | less condor.out | |
| 46 | cat md5.txt | |
| 47 | ||
| 48 | ############################################################### |
