Job ID = 2010361 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T13:15:44 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-07-05T13:15:55 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-07-05T13:15:55 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 12,862,514 reads read : 12,862,514 reads written : 12,862,514 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: 00:02:40 12862514 reads; of these: 12862514 (100.00%) were unpaired; of these: 1262882 (9.82%) aligned 0 times 9831909 (76.44%) aligned exactly 1 time 1767723 (13.74%) aligned >1 times 90.18% overall alignment rate Time searching: 00:02:40 Overall time: 00:02:40 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 8 files... [bam_rmdupse_core] 4111534 / 11599632 = 0.3545 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 22:28:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.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 22:28:03: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:28:03: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:28:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.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 22:28:04: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:28:04: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:28:10: 1000000 INFO @ Fri, 05 Jul 2019 22:28:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.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 22:28:11: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:28:11: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:28:12: 1000000 INFO @ Fri, 05 Jul 2019 22:28:17: 2000000 INFO @ Fri, 05 Jul 2019 22:28:19: 1000000 INFO @ Fri, 05 Jul 2019 22:28:20: 2000000 INFO @ Fri, 05 Jul 2019 22:28:23: 3000000 INFO @ Fri, 05 Jul 2019 22:28:27: 2000000 INFO @ Fri, 05 Jul 2019 22:28:27: 3000000 INFO @ Fri, 05 Jul 2019 22:28:30: 4000000 INFO @ Fri, 05 Jul 2019 22:28:34: 3000000 INFO @ Fri, 05 Jul 2019 22:28:35: 4000000 INFO @ Fri, 05 Jul 2019 22:28:37: 5000000 INFO @ Fri, 05 Jul 2019 22:28:42: 4000000 INFO @ Fri, 05 Jul 2019 22:28:42: 5000000 INFO @ Fri, 05 Jul 2019 22:28:43: 6000000 INFO @ Fri, 05 Jul 2019 22:28:49: 5000000 INFO @ Fri, 05 Jul 2019 22:28:49: 6000000 INFO @ Fri, 05 Jul 2019 22:28:50: 7000000 INFO @ Fri, 05 Jul 2019 22:28:53: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 22:28:53: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 22:28:53: #1 total tags in treatment: 7488098 INFO @ Fri, 05 Jul 2019 22:28:53: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:28:53: #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 22:28:53: #1 tags after filtering in treatment: 7488098 INFO @ Fri, 05 Jul 2019 22:28:53: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:28:53: #1 finished! INFO @ Fri, 05 Jul 2019 22:28:53: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:28:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:28:54: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:28:54: 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 22:28:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.05_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/SRX377014/SRX377014.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:28:56: 6000000 INFO @ Fri, 05 Jul 2019 22:28:57: 7000000 INFO @ Fri, 05 Jul 2019 22:29:00: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 22:29:00: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 22:29:00: #1 total tags in treatment: 7488098 INFO @ Fri, 05 Jul 2019 22:29:00: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:29:00: #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 22:29:00: #1 tags after filtering in treatment: 7488098 INFO @ Fri, 05 Jul 2019 22:29:00: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:29:00: #1 finished! INFO @ Fri, 05 Jul 2019 22:29:00: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:29:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:29:01: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:29:01: 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 22:29:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.10_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/SRX377014/SRX377014.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:29:03: 7000000 INFO @ Fri, 05 Jul 2019 22:29:07: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 22:29:07: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 22:29:07: #1 total tags in treatment: 7488098 INFO @ Fri, 05 Jul 2019 22:29:07: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:29:07: #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 22:29:07: #1 tags after filtering in treatment: 7488098 INFO @ Fri, 05 Jul 2019 22:29:07: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:29:07: #1 finished! INFO @ Fri, 05 Jul 2019 22:29:07: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:29:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:29:08: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:29:08: 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 22:29:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.20_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/SRX377014/SRX377014.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377014/SRX377014.20_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。