Job ID = 1295145 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T03:11:58 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 : 42,776,065 reads read : 85,552,130 reads written : 42,776,065 reads 0-length : 42,776,065 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: 00:10:44 42776065 reads; of these: 42776065 (100.00%) were unpaired; of these: 1477687 (3.45%) aligned 0 times 37044869 (86.60%) aligned exactly 1 time 4253509 (9.94%) aligned >1 times 96.55% overall alignment rate Time searching: 00:10:44 Overall time: 00:10:44 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 20 files... [bam_rmdupse_core] 5651348 / 41298378 = 0.1368 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 12:47:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.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 12:47:08: #1 read tag files... INFO @ Mon, 03 Jun 2019 12:47:08: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 12:47:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.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 12:47:08: #1 read tag files... INFO @ Mon, 03 Jun 2019 12:47:08: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 12:47:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.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 12:47:08: #1 read tag files... INFO @ Mon, 03 Jun 2019 12:47:08: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 12:47:16: 1000000 INFO @ Mon, 03 Jun 2019 12:47:16: 1000000 INFO @ Mon, 03 Jun 2019 12:47:17: 1000000 INFO @ Mon, 03 Jun 2019 12:47:24: 2000000 INFO @ Mon, 03 Jun 2019 12:47:24: 2000000 INFO @ Mon, 03 Jun 2019 12:47:25: 2000000 INFO @ Mon, 03 Jun 2019 12:47:32: 3000000 INFO @ Mon, 03 Jun 2019 12:47:32: 3000000 INFO @ Mon, 03 Jun 2019 12:47:33: 3000000 INFO @ Mon, 03 Jun 2019 12:47:39: 4000000 INFO @ Mon, 03 Jun 2019 12:47:40: 4000000 INFO @ Mon, 03 Jun 2019 12:47:42: 4000000 INFO @ Mon, 03 Jun 2019 12:47:47: 5000000 INFO @ Mon, 03 Jun 2019 12:47:47: 5000000 INFO @ Mon, 03 Jun 2019 12:47:50: 5000000 INFO @ Mon, 03 Jun 2019 12:47:55: 6000000 INFO @ Mon, 03 Jun 2019 12:47:55: 6000000 INFO @ Mon, 03 Jun 2019 12:47:58: 6000000 INFO @ Mon, 03 Jun 2019 12:48:02: 7000000 INFO @ Mon, 03 Jun 2019 12:48:03: 7000000 INFO @ Mon, 03 Jun 2019 12:48:06: 7000000 INFO @ Mon, 03 Jun 2019 12:48:10: 8000000 INFO @ Mon, 03 Jun 2019 12:48:10: 8000000 INFO @ Mon, 03 Jun 2019 12:48:15: 8000000 INFO @ Mon, 03 Jun 2019 12:48:18: 9000000 INFO @ Mon, 03 Jun 2019 12:48:18: 9000000 INFO @ Mon, 03 Jun 2019 12:48:23: 9000000 INFO @ Mon, 03 Jun 2019 12:48:25: 10000000 INFO @ Mon, 03 Jun 2019 12:48:26: 10000000 INFO @ Mon, 03 Jun 2019 12:48:31: 10000000 INFO @ Mon, 03 Jun 2019 12:48:33: 11000000 INFO @ Mon, 03 Jun 2019 12:48:33: 11000000 INFO @ Mon, 03 Jun 2019 12:48:39: 11000000 INFO @ Mon, 03 Jun 2019 12:48:40: 12000000 INFO @ Mon, 03 Jun 2019 12:48:41: 12000000 INFO @ Mon, 03 Jun 2019 12:48:47: 12000000 INFO @ Mon, 03 Jun 2019 12:48:48: 13000000 INFO @ Mon, 03 Jun 2019 12:48:49: 13000000 INFO @ Mon, 03 Jun 2019 12:48:55: 13000000 INFO @ Mon, 03 Jun 2019 12:48:55: 14000000 INFO @ Mon, 03 Jun 2019 12:48:56: 14000000 INFO @ Mon, 03 Jun 2019 12:49:03: 15000000 INFO @ Mon, 03 Jun 2019 12:49:04: 14000000 INFO @ Mon, 03 Jun 2019 12:49:04: 15000000 INFO @ Mon, 03 Jun 2019 12:49:11: 16000000 INFO @ Mon, 03 Jun 2019 12:49:11: 16000000 INFO @ Mon, 03 Jun 2019 12:49:12: 15000000 INFO @ Mon, 03 Jun 2019 12:49:18: 17000000 INFO @ Mon, 03 Jun 2019 12:49:19: 17000000 INFO @ Mon, 03 Jun 2019 12:49:20: 16000000 INFO @ Mon, 03 Jun 2019 12:49:26: 18000000 INFO @ Mon, 03 Jun 2019 12:49:26: 18000000 INFO @ Mon, 03 Jun 2019 12:49:28: 17000000 INFO @ Mon, 03 Jun 2019 12:49:33: 19000000 INFO @ Mon, 03 Jun 2019 12:49:34: 19000000 INFO @ Mon, 03 Jun 2019 12:49:36: 18000000 INFO @ Mon, 03 Jun 2019 12:49:41: 20000000 INFO @ Mon, 03 Jun 2019 12:49:41: 20000000 INFO @ Mon, 03 Jun 2019 12:49:44: 19000000 INFO @ Mon, 03 Jun 2019 12:49:48: 21000000 INFO @ Mon, 03 Jun 2019 12:49:49: 21000000 INFO @ Mon, 03 Jun 2019 12:49:52: 20000000 INFO @ Mon, 03 Jun 2019 12:49:56: 22000000 INFO @ Mon, 03 Jun 2019 12:49:57: 22000000 INFO @ Mon, 03 Jun 2019 12:50:01: 21000000 INFO @ Mon, 03 Jun 2019 12:50:04: 23000000 INFO @ Mon, 03 Jun 2019 12:50:05: 23000000 INFO @ Mon, 03 Jun 2019 12:50:09: 22000000 INFO @ Mon, 03 Jun 2019 12:50:12: 24000000 INFO @ Mon, 03 Jun 2019 12:50:12: 24000000 INFO @ Mon, 03 Jun 2019 12:50:18: 23000000 INFO @ Mon, 03 Jun 2019 12:50:19: 25000000 INFO @ Mon, 03 Jun 2019 12:50:20: 25000000 INFO @ Mon, 03 Jun 2019 12:50:26: 24000000 INFO @ Mon, 03 Jun 2019 12:50:27: 26000000 INFO @ Mon, 03 Jun 2019 12:50:28: 26000000 INFO @ Mon, 03 Jun 2019 12:50:34: 25000000 INFO @ Mon, 03 Jun 2019 12:50:35: 27000000 INFO @ Mon, 03 Jun 2019 12:50:36: 27000000 INFO @ Mon, 03 Jun 2019 12:50:42: 28000000 INFO @ Mon, 03 Jun 2019 12:50:43: 26000000 INFO @ Mon, 03 Jun 2019 12:50:43: 28000000 INFO @ Mon, 03 Jun 2019 12:50:50: 29000000 INFO @ Mon, 03 Jun 2019 12:50:51: 29000000 INFO @ Mon, 03 Jun 2019 12:50:51: 27000000 INFO @ Mon, 03 Jun 2019 12:50:58: 30000000 INFO @ Mon, 03 Jun 2019 12:50:58: 30000000 INFO @ Mon, 03 Jun 2019 12:51:00: 28000000 INFO @ Mon, 03 Jun 2019 12:51:05: 31000000 INFO @ Mon, 03 Jun 2019 12:51:06: 31000000 INFO @ Mon, 03 Jun 2019 12:51:08: 29000000 INFO @ Mon, 03 Jun 2019 12:51:13: 32000000 INFO @ Mon, 03 Jun 2019 12:51:14: 32000000 INFO @ Mon, 03 Jun 2019 12:51:16: 30000000 INFO @ Mon, 03 Jun 2019 12:51:20: 33000000 INFO @ Mon, 03 Jun 2019 12:51:21: 33000000 INFO @ Mon, 03 Jun 2019 12:51:24: 31000000 INFO @ Mon, 03 Jun 2019 12:51:28: 34000000 INFO @ Mon, 03 Jun 2019 12:51:29: 34000000 INFO @ Mon, 03 Jun 2019 12:51:32: 32000000 INFO @ Mon, 03 Jun 2019 12:51:35: 35000000 INFO @ Mon, 03 Jun 2019 12:51:36: 35000000 INFO @ Mon, 03 Jun 2019 12:51:40: #1 tag size is determined as 51 bps INFO @ Mon, 03 Jun 2019 12:51:40: #1 tag size = 51 INFO @ Mon, 03 Jun 2019 12:51:40: #1 total tags in treatment: 35647030 INFO @ Mon, 03 Jun 2019 12:51:40: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 12:51:40: #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 12:51:41: 33000000 INFO @ Mon, 03 Jun 2019 12:51:41: #1 tags after filtering in treatment: 35647030 INFO @ Mon, 03 Jun 2019 12:51:41: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 12:51:41: #1 finished! INFO @ Mon, 03 Jun 2019 12:51:41: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 12:51:41: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 12:51:41: #1 tag size is determined as 51 bps INFO @ Mon, 03 Jun 2019 12:51:41: #1 tag size = 51 INFO @ Mon, 03 Jun 2019 12:51:41: #1 total tags in treatment: 35647030 INFO @ Mon, 03 Jun 2019 12:51:41: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 12:51:41: #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 12:51:42: #1 tags after filtering in treatment: 35647030 INFO @ Mon, 03 Jun 2019 12:51:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 12:51:42: #1 finished! INFO @ Mon, 03 Jun 2019 12:51:42: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 12:51:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 12:51:44: #2 number of paired peaks: 25 WARNING @ Mon, 03 Jun 2019 12:51:44: Too few paired peaks (25) 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 12:51:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.05_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/SRX3279761/SRX3279761.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 12:51:45: #2 number of paired peaks: 25 WARNING @ Mon, 03 Jun 2019 12:51:45: Too few paired peaks (25) 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 12:51:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 12:51:48: 34000000 INFO @ Mon, 03 Jun 2019 12:51:56: 35000000 INFO @ Mon, 03 Jun 2019 12:52:02: #1 tag size is determined as 51 bps INFO @ Mon, 03 Jun 2019 12:52:02: #1 tag size = 51 INFO @ Mon, 03 Jun 2019 12:52:02: #1 total tags in treatment: 35647030 INFO @ Mon, 03 Jun 2019 12:52:02: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 12:52:02: #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 12:52:02: #1 tags after filtering in treatment: 35647030 INFO @ Mon, 03 Jun 2019 12:52:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 12:52:02: #1 finished! INFO @ Mon, 03 Jun 2019 12:52:02: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 12:52:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 12:52:05: #2 number of paired peaks: 25 WARNING @ Mon, 03 Jun 2019 12:52:05: Too few paired peaks (25) 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 12:52:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.10_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/dm3/SRX3279761/SRX3279761.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279761/SRX3279761.10_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。