Job ID = 2009898 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T11:34:16 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - mbedtls_ssl_handshake returned -76 ( NET - Reading information from the socket failed ) 2019-07-05T11:34:16 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - ktls_handshake failed while accessing '130.14.250.27' from '172.19.7.73' 2019-07-05T11:34:16 fasterq-dump.2.9.6 sys: connection failed while opening file within cryptographic module - Failed to create TLS stream for 'sra-download.ncbi.nlm.nih.gov' (130.14.250.27) from '172.19.7.73' 2019-07-05T11:34:16 fasterq-dump.2.9.6 err: connection failed while opening file within cryptographic module - error with https open 'https://sra-download.ncbi.nlm.nih.gov/traces/sra43/SRR/004106/SRR4204588' 2019-07-05T11:34:29 fasterq-dump.2.9.6 err: cmn_iter.c cmn_get_acc_type( 'SRR4204588', 'NAME' ).VDBManagerOpenTableRead() -> RC(rcDB,rcMgr,rcOpening,rcTable,rcIncorrect) spots read : 20,830,071 reads read : 20,830,071 reads written : 20,830,071 rm: cannot remove ‘[DSE]RR*’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:05 20830071 reads; of these: 20830071 (100.00%) were unpaired; of these: 699403 (3.36%) aligned 0 times 16114512 (77.36%) aligned exactly 1 time 4016156 (19.28%) aligned >1 times 96.64% overall alignment rate Time searching: 00:04:05 Overall time: 00:04:05 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 9318783 / 20130668 = 0.4629 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Fri, 05 Jul 2019 21:02:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 21:02:50: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:02:50: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:02:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 21:02:51: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:02:51: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:02:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 21:02:52: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:02:52: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:02:57: 1000000 INFO @ Fri, 05 Jul 2019 21:02:59: 1000000 INFO @ Fri, 05 Jul 2019 21:02:59: 1000000 INFO @ Fri, 05 Jul 2019 21:03:05: 2000000 INFO @ Fri, 05 Jul 2019 21:03:06: 2000000 INFO @ Fri, 05 Jul 2019 21:03:07: 2000000 INFO @ Fri, 05 Jul 2019 21:03:12: 3000000 INFO @ Fri, 05 Jul 2019 21:03:14: 3000000 INFO @ Fri, 05 Jul 2019 21:03:15: 3000000 INFO @ Fri, 05 Jul 2019 21:03:19: 4000000 INFO @ Fri, 05 Jul 2019 21:03:21: 4000000 INFO @ Fri, 05 Jul 2019 21:03:23: 4000000 INFO @ Fri, 05 Jul 2019 21:03:26: 5000000 INFO @ Fri, 05 Jul 2019 21:03:29: 5000000 INFO @ Fri, 05 Jul 2019 21:03:31: 5000000 INFO @ Fri, 05 Jul 2019 21:03:33: 6000000 INFO @ Fri, 05 Jul 2019 21:03:36: 6000000 INFO @ Fri, 05 Jul 2019 21:03:40: 6000000 INFO @ Fri, 05 Jul 2019 21:03:41: 7000000 INFO @ Fri, 05 Jul 2019 21:03:43: 7000000 INFO @ Fri, 05 Jul 2019 21:03:48: 7000000 INFO @ Fri, 05 Jul 2019 21:03:48: 8000000 INFO @ Fri, 05 Jul 2019 21:03:50: 8000000 INFO @ Fri, 05 Jul 2019 21:03:56: 9000000 INFO @ Fri, 05 Jul 2019 21:03:57: 8000000 INFO @ Fri, 05 Jul 2019 21:03:57: 9000000 INFO @ Fri, 05 Jul 2019 21:04:04: 10000000 INFO @ Fri, 05 Jul 2019 21:04:04: 10000000 INFO @ Fri, 05 Jul 2019 21:04:05: 9000000 INFO @ Fri, 05 Jul 2019 21:04:10: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 21:04:10: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 21:04:10: #1 total tags in treatment: 10811885 INFO @ Fri, 05 Jul 2019 21:04:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:04:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:04:10: #1 tags after filtering in treatment: 10811885 INFO @ Fri, 05 Jul 2019 21:04:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:04:10: #1 finished! INFO @ Fri, 05 Jul 2019 21:04:10: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:04:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:04:10: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 21:04:10: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 21:04:10: #1 total tags in treatment: 10811885 INFO @ Fri, 05 Jul 2019 21:04:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:04:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:04:10: #1 tags after filtering in treatment: 10811885 INFO @ Fri, 05 Jul 2019 21:04:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:04:10: #1 finished! INFO @ Fri, 05 Jul 2019 21:04:10: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:04:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:04:11: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:04:11: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 21:04:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:04:11: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:04:11: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 21:04:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:04:13: 10000000 INFO @ Fri, 05 Jul 2019 21:04:20: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 21:04:20: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 21:04:20: #1 total tags in treatment: 10811885 INFO @ Fri, 05 Jul 2019 21:04:20: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:04:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:04:20: #1 tags after filtering in treatment: 10811885 INFO @ Fri, 05 Jul 2019 21:04:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:04:20: #1 finished! INFO @ Fri, 05 Jul 2019 21:04:20: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:04:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:04:21: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:04:21: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 21:04:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2148748/SRX2148748.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。