Job ID = 1295385 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T04:39:21 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 : 84,993,195 reads read : 84,993,195 reads written : 84,993,195 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: 00:29:59 84993195 reads; of these: 84993195 (100.00%) were unpaired; of these: 2870215 (3.38%) aligned 0 times 60614097 (71.32%) aligned exactly 1 time 21508883 (25.31%) aligned >1 times 96.62% overall alignment rate Time searching: 00:29:59 Overall time: 00:29:59 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 36 files... [bam_rmdupse_core] 34985404 / 82122980 = 0.4260 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 14:52:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.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 14:52:30: #1 read tag files... INFO @ Mon, 03 Jun 2019 14:52:30: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 14:52:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.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 14:52:30: #1 read tag files... INFO @ Mon, 03 Jun 2019 14:52:30: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 14:52:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.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 14:52:30: #1 read tag files... INFO @ Mon, 03 Jun 2019 14:52:30: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 14:52:40: 1000000 INFO @ Mon, 03 Jun 2019 14:52:41: 1000000 INFO @ Mon, 03 Jun 2019 14:52:41: 1000000 INFO @ Mon, 03 Jun 2019 14:52:50: 2000000 INFO @ Mon, 03 Jun 2019 14:52:51: 2000000 INFO @ Mon, 03 Jun 2019 14:52:52: 2000000 INFO @ Mon, 03 Jun 2019 14:52:59: 3000000 INFO @ Mon, 03 Jun 2019 14:53:02: 3000000 INFO @ Mon, 03 Jun 2019 14:53:03: 3000000 INFO @ Mon, 03 Jun 2019 14:53:08: 4000000 INFO @ Mon, 03 Jun 2019 14:53:12: 4000000 INFO @ Mon, 03 Jun 2019 14:53:14: 4000000 INFO @ Mon, 03 Jun 2019 14:53:19: 5000000 INFO @ Mon, 03 Jun 2019 14:53:23: 5000000 INFO @ Mon, 03 Jun 2019 14:53:24: 5000000 INFO @ Mon, 03 Jun 2019 14:53:28: 6000000 INFO @ Mon, 03 Jun 2019 14:53:33: 6000000 INFO @ Mon, 03 Jun 2019 14:53:35: 6000000 INFO @ Mon, 03 Jun 2019 14:53:37: 7000000 INFO @ Mon, 03 Jun 2019 14:53:43: 7000000 INFO @ Mon, 03 Jun 2019 14:53:45: 7000000 INFO @ Mon, 03 Jun 2019 14:53:47: 8000000 INFO @ Mon, 03 Jun 2019 14:53:53: 8000000 INFO @ Mon, 03 Jun 2019 14:53:55: 8000000 INFO @ Mon, 03 Jun 2019 14:53:56: 9000000 INFO @ Mon, 03 Jun 2019 14:54:03: 9000000 INFO @ Mon, 03 Jun 2019 14:54:05: 10000000 INFO @ Mon, 03 Jun 2019 14:54:05: 9000000 INFO @ Mon, 03 Jun 2019 14:54:14: 10000000 INFO @ Mon, 03 Jun 2019 14:54:15: 11000000 INFO @ Mon, 03 Jun 2019 14:54:16: 10000000 INFO @ Mon, 03 Jun 2019 14:54:24: 11000000 INFO @ Mon, 03 Jun 2019 14:54:25: 12000000 INFO @ Mon, 03 Jun 2019 14:54:26: 11000000 INFO @ Mon, 03 Jun 2019 14:54:34: 12000000 INFO @ Mon, 03 Jun 2019 14:54:35: 13000000 INFO @ Mon, 03 Jun 2019 14:54:37: 12000000 INFO @ Mon, 03 Jun 2019 14:54:44: 14000000 INFO @ Mon, 03 Jun 2019 14:54:45: 13000000 INFO @ Mon, 03 Jun 2019 14:54:48: 13000000 INFO @ Mon, 03 Jun 2019 14:54:53: 15000000 INFO @ Mon, 03 Jun 2019 14:54:55: 14000000 INFO @ Mon, 03 Jun 2019 14:54:59: 14000000 INFO @ Mon, 03 Jun 2019 14:55:02: 16000000 INFO @ Mon, 03 Jun 2019 14:55:05: 15000000 INFO @ Mon, 03 Jun 2019 14:55:09: 15000000 INFO @ Mon, 03 Jun 2019 14:55:12: 17000000 INFO @ Mon, 03 Jun 2019 14:55:16: 16000000 INFO @ Mon, 03 Jun 2019 14:55:20: 16000000 INFO @ Mon, 03 Jun 2019 14:55:22: 18000000 INFO @ Mon, 03 Jun 2019 14:55:26: 17000000 INFO @ Mon, 03 Jun 2019 14:55:30: 17000000 INFO @ Mon, 03 Jun 2019 14:55:31: 19000000 INFO @ Mon, 03 Jun 2019 14:55:36: 18000000 INFO @ Mon, 03 Jun 2019 14:55:40: 18000000 INFO @ Mon, 03 Jun 2019 14:55:41: 20000000 INFO @ Mon, 03 Jun 2019 14:55:46: 19000000 INFO @ Mon, 03 Jun 2019 14:55:50: 21000000 INFO @ Mon, 03 Jun 2019 14:55:50: 19000000 INFO @ Mon, 03 Jun 2019 14:55:56: 20000000 INFO @ Mon, 03 Jun 2019 14:55:59: 22000000 INFO @ Mon, 03 Jun 2019 14:56:01: 20000000 INFO @ Mon, 03 Jun 2019 14:56:06: 21000000 INFO @ Mon, 03 Jun 2019 14:56:08: 23000000 INFO @ Mon, 03 Jun 2019 14:56:11: 21000000 INFO @ Mon, 03 Jun 2019 14:56:17: 22000000 INFO @ Mon, 03 Jun 2019 14:56:18: 24000000 INFO @ Mon, 03 Jun 2019 14:56:22: 22000000 INFO @ Mon, 03 Jun 2019 14:56:27: 23000000 INFO @ Mon, 03 Jun 2019 14:56:28: 25000000 INFO @ Mon, 03 Jun 2019 14:56:32: 23000000 INFO @ Mon, 03 Jun 2019 14:56:37: 26000000 INFO @ Mon, 03 Jun 2019 14:56:37: 24000000 INFO @ Mon, 03 Jun 2019 14:56:42: 24000000 INFO @ Mon, 03 Jun 2019 14:56:46: 27000000 INFO @ Mon, 03 Jun 2019 14:56:47: 25000000 INFO @ Mon, 03 Jun 2019 14:56:52: 25000000 INFO @ Mon, 03 Jun 2019 14:56:55: 28000000 INFO @ Mon, 03 Jun 2019 14:56:57: 26000000 INFO @ Mon, 03 Jun 2019 14:57:03: 26000000 INFO @ Mon, 03 Jun 2019 14:57:04: 29000000 INFO @ Mon, 03 Jun 2019 14:57:08: 27000000 INFO @ Mon, 03 Jun 2019 14:57:13: 27000000 INFO @ Mon, 03 Jun 2019 14:57:14: 30000000 INFO @ Mon, 03 Jun 2019 14:57:19: 28000000 INFO @ Mon, 03 Jun 2019 14:57:23: 28000000 INFO @ Mon, 03 Jun 2019 14:57:24: 31000000 INFO @ Mon, 03 Jun 2019 14:57:29: 29000000 INFO @ Mon, 03 Jun 2019 14:57:33: 32000000 INFO @ Mon, 03 Jun 2019 14:57:34: 29000000 INFO @ Mon, 03 Jun 2019 14:57:39: 30000000 INFO @ Mon, 03 Jun 2019 14:57:43: 33000000 INFO @ Mon, 03 Jun 2019 14:57:44: 30000000 INFO @ Mon, 03 Jun 2019 14:57:49: 31000000 INFO @ Mon, 03 Jun 2019 14:57:52: 34000000 INFO @ Mon, 03 Jun 2019 14:57:54: 31000000 INFO @ Mon, 03 Jun 2019 14:58:00: 32000000 INFO @ Mon, 03 Jun 2019 14:58:01: 35000000 INFO @ Mon, 03 Jun 2019 14:58:04: 32000000 INFO @ Mon, 03 Jun 2019 14:58:11: 36000000 INFO @ Mon, 03 Jun 2019 14:58:11: 33000000 INFO @ Mon, 03 Jun 2019 14:58:15: 33000000 INFO @ Mon, 03 Jun 2019 14:58:20: 37000000 INFO @ Mon, 03 Jun 2019 14:58:21: 34000000 INFO @ Mon, 03 Jun 2019 14:58:25: 34000000 INFO @ Mon, 03 Jun 2019 14:58:31: 38000000 INFO @ Mon, 03 Jun 2019 14:58:32: 35000000 INFO @ Mon, 03 Jun 2019 14:58:35: 35000000 INFO @ Mon, 03 Jun 2019 14:58:41: 39000000 INFO @ Mon, 03 Jun 2019 14:58:42: 36000000 INFO @ Mon, 03 Jun 2019 14:58:46: 36000000 INFO @ Mon, 03 Jun 2019 14:58:50: 40000000 INFO @ Mon, 03 Jun 2019 14:58:53: 37000000 INFO @ Mon, 03 Jun 2019 14:58:56: 37000000 INFO @ Mon, 03 Jun 2019 14:58:59: 41000000 INFO @ Mon, 03 Jun 2019 14:59:04: 38000000 INFO @ Mon, 03 Jun 2019 14:59:07: 38000000 INFO @ Mon, 03 Jun 2019 14:59:09: 42000000 INFO @ Mon, 03 Jun 2019 14:59:16: 39000000 INFO @ Mon, 03 Jun 2019 14:59:18: 43000000 INFO @ Mon, 03 Jun 2019 14:59:18: 39000000 INFO @ Mon, 03 Jun 2019 14:59:27: 40000000 INFO @ Mon, 03 Jun 2019 14:59:29: 44000000 INFO @ Mon, 03 Jun 2019 14:59:29: 40000000 INFO @ Mon, 03 Jun 2019 14:59:37: 41000000 INFO @ Mon, 03 Jun 2019 14:59:39: 45000000 INFO @ Mon, 03 Jun 2019 14:59:39: 41000000 INFO @ Mon, 03 Jun 2019 14:59:48: 42000000 INFO @ Mon, 03 Jun 2019 14:59:48: 46000000 INFO @ Mon, 03 Jun 2019 14:59:50: 42000000 INFO @ Mon, 03 Jun 2019 14:59:57: 47000000 INFO @ Mon, 03 Jun 2019 14:59:58: 43000000 INFO @ Mon, 03 Jun 2019 14:59:59: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 14:59:59: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 14:59:59: #1 total tags in treatment: 47137576 INFO @ Mon, 03 Jun 2019 14:59:59: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 14:59:59: #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 15:00:00: #1 tags after filtering in treatment: 47137576 INFO @ Mon, 03 Jun 2019 15:00:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 15:00:00: #1 finished! INFO @ Mon, 03 Jun 2019 15:00:00: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 15:00:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 15:00:00: 43000000 INFO @ Mon, 03 Jun 2019 15:00:04: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 15:00:04: 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 15:00:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.10_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/SRX335514/SRX335514.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 15:00:09: 44000000 INFO @ Mon, 03 Jun 2019 15:00:11: 44000000 INFO @ Mon, 03 Jun 2019 15:00:19: 45000000 INFO @ Mon, 03 Jun 2019 15:00:21: 45000000 INFO @ Mon, 03 Jun 2019 15:00:30: 46000000 INFO @ Mon, 03 Jun 2019 15:00:31: 46000000 INFO @ Mon, 03 Jun 2019 15:00:41: 47000000 INFO @ Mon, 03 Jun 2019 15:00:41: 47000000 INFO @ Mon, 03 Jun 2019 15:00:42: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 15:00:42: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 15:00:42: #1 total tags in treatment: 47137576 INFO @ Mon, 03 Jun 2019 15:00:42: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 15:00:42: #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 15:00:43: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 15:00:43: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 15:00:43: #1 total tags in treatment: 47137576 INFO @ Mon, 03 Jun 2019 15:00:43: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 15:00:43: #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 15:00:43: #1 tags after filtering in treatment: 47137576 INFO @ Mon, 03 Jun 2019 15:00:43: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 15:00:43: #1 finished! INFO @ Mon, 03 Jun 2019 15:00:43: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 15:00:43: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 15:00:44: #1 tags after filtering in treatment: 47137576 INFO @ Mon, 03 Jun 2019 15:00:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 15:00:44: #1 finished! INFO @ Mon, 03 Jun 2019 15:00:44: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 15:00:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 15:00:47: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 15:00:47: 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 15:00:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.05_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/SRX335514/SRX335514.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 15:00:48: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 15:00:48: 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 15:00:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.20_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/SRX335514/SRX335514.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX335514/SRX335514.20_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。