Job ID = 1295338 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T04:20:29 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 ) 2019-06-03T04:24:12 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 : 35,836,077 reads read : 35,836,077 reads written : 35,836,077 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘fastqDump_tmp*’: 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: 00:10:23 35836077 reads; of these: 35836077 (100.00%) were unpaired; of these: 3658816 (10.21%) aligned 0 times 27705478 (77.31%) aligned exactly 1 time 4471783 (12.48%) aligned >1 times 89.79% overall alignment rate Time searching: 00:10:23 Overall time: 00:10:23 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 8368263 / 32177261 = 0.2601 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 @ Mon, 03 Jun 2019 13:51:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 03 Jun 2019 13:51:10: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:51:10: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:51:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 03 Jun 2019 13:51:10: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:51:10: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:51:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 03 Jun 2019 13:51:10: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:51:10: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:51:18: 1000000 INFO @ Mon, 03 Jun 2019 13:51:19: 1000000 INFO @ Mon, 03 Jun 2019 13:51:20: 1000000 INFO @ Mon, 03 Jun 2019 13:51:26: 2000000 INFO @ Mon, 03 Jun 2019 13:51:28: 2000000 INFO @ Mon, 03 Jun 2019 13:51:29: 2000000 INFO @ Mon, 03 Jun 2019 13:51:33: 3000000 INFO @ Mon, 03 Jun 2019 13:51:37: 3000000 INFO @ Mon, 03 Jun 2019 13:51:39: 3000000 INFO @ Mon, 03 Jun 2019 13:51:41: 4000000 INFO @ Mon, 03 Jun 2019 13:51:46: 4000000 INFO @ Mon, 03 Jun 2019 13:51:48: 4000000 INFO @ Mon, 03 Jun 2019 13:51:49: 5000000 INFO @ Mon, 03 Jun 2019 13:51:55: 5000000 INFO @ Mon, 03 Jun 2019 13:51:57: 6000000 INFO @ Mon, 03 Jun 2019 13:51:58: 5000000 INFO @ Mon, 03 Jun 2019 13:52:05: 6000000 INFO @ Mon, 03 Jun 2019 13:52:06: 7000000 INFO @ Mon, 03 Jun 2019 13:52:07: 6000000 INFO @ Mon, 03 Jun 2019 13:52:13: 8000000 INFO @ Mon, 03 Jun 2019 13:52:14: 7000000 INFO @ Mon, 03 Jun 2019 13:52:17: 7000000 INFO @ Mon, 03 Jun 2019 13:52:21: 9000000 INFO @ Mon, 03 Jun 2019 13:52:23: 8000000 INFO @ Mon, 03 Jun 2019 13:52:26: 8000000 INFO @ Mon, 03 Jun 2019 13:52:28: 10000000 INFO @ Mon, 03 Jun 2019 13:52:32: 9000000 INFO @ Mon, 03 Jun 2019 13:52:35: 9000000 INFO @ Mon, 03 Jun 2019 13:52:35: 11000000 INFO @ Mon, 03 Jun 2019 13:52:41: 10000000 INFO @ Mon, 03 Jun 2019 13:52:43: 12000000 INFO @ Mon, 03 Jun 2019 13:52:45: 10000000 INFO @ Mon, 03 Jun 2019 13:52:50: 11000000 INFO @ Mon, 03 Jun 2019 13:52:50: 13000000 INFO @ Mon, 03 Jun 2019 13:52:54: 11000000 INFO @ Mon, 03 Jun 2019 13:52:58: 14000000 INFO @ Mon, 03 Jun 2019 13:52:58: 12000000 INFO @ Mon, 03 Jun 2019 13:53:03: 12000000 INFO @ Mon, 03 Jun 2019 13:53:05: 15000000 INFO @ Mon, 03 Jun 2019 13:53:07: 13000000 INFO @ Mon, 03 Jun 2019 13:53:12: 13000000 INFO @ Mon, 03 Jun 2019 13:53:13: 16000000 INFO @ Mon, 03 Jun 2019 13:53:16: 14000000 INFO @ Mon, 03 Jun 2019 13:53:20: 17000000 INFO @ Mon, 03 Jun 2019 13:53:21: 14000000 INFO @ Mon, 03 Jun 2019 13:53:25: 15000000 INFO @ Mon, 03 Jun 2019 13:53:28: 18000000 INFO @ Mon, 03 Jun 2019 13:53:31: 15000000 INFO @ Mon, 03 Jun 2019 13:53:35: 16000000 INFO @ Mon, 03 Jun 2019 13:53:36: 19000000 INFO @ Mon, 03 Jun 2019 13:53:40: 16000000 INFO @ Mon, 03 Jun 2019 13:53:43: 17000000 INFO @ Mon, 03 Jun 2019 13:53:43: 20000000 INFO @ Mon, 03 Jun 2019 13:53:49: 17000000 INFO @ Mon, 03 Jun 2019 13:53:51: 21000000 INFO @ Mon, 03 Jun 2019 13:53:52: 18000000 INFO @ Mon, 03 Jun 2019 13:53:58: 18000000 INFO @ Mon, 03 Jun 2019 13:53:58: 22000000 INFO @ Mon, 03 Jun 2019 13:54:00: 19000000 INFO @ Mon, 03 Jun 2019 13:54:06: 23000000 INFO @ Mon, 03 Jun 2019 13:54:07: 19000000 INFO @ Mon, 03 Jun 2019 13:54:09: 20000000 INFO @ Mon, 03 Jun 2019 13:54:12: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 13:54:12: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 13:54:12: #1 total tags in treatment: 23808998 INFO @ Mon, 03 Jun 2019 13:54:12: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:54:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 13:54:12: #1 tags after filtering in treatment: 23808998 INFO @ Mon, 03 Jun 2019 13:54:12: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:54:12: #1 finished! INFO @ Mon, 03 Jun 2019 13:54:12: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:54:12: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:54:14: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 13:54:14: 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 @ Mon, 03 Jun 2019 13:54:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.05_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/dm3/SRX335494/SRX335494.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 13:54:17: 20000000 INFO @ Mon, 03 Jun 2019 13:54:18: 21000000 INFO @ Mon, 03 Jun 2019 13:54:25: 21000000 INFO @ Mon, 03 Jun 2019 13:54:26: 22000000 INFO @ Mon, 03 Jun 2019 13:54:34: 22000000 INFO @ Mon, 03 Jun 2019 13:54:35: 23000000 INFO @ Mon, 03 Jun 2019 13:54:42: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 13:54:42: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 13:54:42: #1 total tags in treatment: 23808998 INFO @ Mon, 03 Jun 2019 13:54:42: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:54:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 13:54:42: #1 tags after filtering in treatment: 23808998 INFO @ Mon, 03 Jun 2019 13:54:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:54:42: #1 finished! INFO @ Mon, 03 Jun 2019 13:54:42: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:54:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:54:43: 23000000 INFO @ Mon, 03 Jun 2019 13:54:44: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 13:54:44: 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 @ Mon, 03 Jun 2019 13:54:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.10_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/dm3/SRX335494/SRX335494.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 13:54:50: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 13:54:50: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 13:54:50: #1 total tags in treatment: 23808998 INFO @ Mon, 03 Jun 2019 13:54:50: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:54:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 03 Jun 2019 13:54:51: #1 tags after filtering in treatment: 23808998 INFO @ Mon, 03 Jun 2019 13:54:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:54:51: #1 finished! INFO @ Mon, 03 Jun 2019 13:54:51: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:54:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:54:53: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 13:54:53: 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 @ Mon, 03 Jun 2019 13:54:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.20_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/dm3/SRX335494/SRX335494.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335494/SRX335494.20_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。