Job ID = 1298765 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T08:30:45 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 ) 2019-06-03T08:32:33 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 ) 2019-06-03T08:35:21 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 ) 2019-06-03T08:37:17 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: 00:29:52 84993195 reads; of these: 84993195 (100.00%) were unpaired; of these: 2870369 (3.38%) aligned 0 times 60614056 (71.32%) aligned exactly 1 time 21508770 (25.31%) aligned >1 times 96.62% overall alignment rate Time searching: 00:29:52 Overall time: 00:29:52 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] 34982034 / 82122826 = 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 18:27:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.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 18:27:52: #1 read tag files... INFO @ Mon, 03 Jun 2019 18:27:52: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 18:27:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.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 18:27:52: #1 read tag files... INFO @ Mon, 03 Jun 2019 18:27:52: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 18:27:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.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 18:27:52: #1 read tag files... INFO @ Mon, 03 Jun 2019 18:27:52: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 18:28:00: 1000000 INFO @ Mon, 03 Jun 2019 18:28:00: 1000000 INFO @ Mon, 03 Jun 2019 18:28:01: 1000000 INFO @ Mon, 03 Jun 2019 18:28:07: 2000000 INFO @ Mon, 03 Jun 2019 18:28:07: 2000000 INFO @ Mon, 03 Jun 2019 18:28:09: 2000000 INFO @ Mon, 03 Jun 2019 18:28:14: 3000000 INFO @ Mon, 03 Jun 2019 18:28:15: 3000000 INFO @ Mon, 03 Jun 2019 18:28:17: 3000000 INFO @ Mon, 03 Jun 2019 18:28:21: 4000000 INFO @ Mon, 03 Jun 2019 18:28:22: 4000000 INFO @ Mon, 03 Jun 2019 18:28:26: 4000000 INFO @ Mon, 03 Jun 2019 18:28:28: 5000000 INFO @ Mon, 03 Jun 2019 18:28:30: 5000000 INFO @ Mon, 03 Jun 2019 18:28:34: 5000000 INFO @ Mon, 03 Jun 2019 18:28:35: 6000000 INFO @ Mon, 03 Jun 2019 18:28:37: 6000000 INFO @ Mon, 03 Jun 2019 18:28:42: 6000000 INFO @ Mon, 03 Jun 2019 18:28:42: 7000000 INFO @ Mon, 03 Jun 2019 18:28:45: 7000000 INFO @ Mon, 03 Jun 2019 18:28:49: 8000000 INFO @ Mon, 03 Jun 2019 18:28:50: 7000000 INFO @ Mon, 03 Jun 2019 18:28:52: 8000000 INFO @ Mon, 03 Jun 2019 18:28:56: 9000000 INFO @ Mon, 03 Jun 2019 18:28:59: 8000000 INFO @ Mon, 03 Jun 2019 18:28:59: 9000000 INFO @ Mon, 03 Jun 2019 18:29:03: 10000000 INFO @ Mon, 03 Jun 2019 18:29:07: 10000000 INFO @ Mon, 03 Jun 2019 18:29:07: 9000000 INFO @ Mon, 03 Jun 2019 18:29:10: 11000000 INFO @ Mon, 03 Jun 2019 18:29:14: 11000000 INFO @ Mon, 03 Jun 2019 18:29:15: 10000000 INFO @ Mon, 03 Jun 2019 18:29:17: 12000000 INFO @ Mon, 03 Jun 2019 18:29:21: 12000000 INFO @ Mon, 03 Jun 2019 18:29:23: 11000000 INFO @ Mon, 03 Jun 2019 18:29:24: 13000000 INFO @ Mon, 03 Jun 2019 18:29:28: 13000000 INFO @ Mon, 03 Jun 2019 18:29:32: 12000000 INFO @ Mon, 03 Jun 2019 18:29:32: 14000000 INFO @ Mon, 03 Jun 2019 18:29:36: 14000000 INFO @ Mon, 03 Jun 2019 18:29:39: 15000000 INFO @ Mon, 03 Jun 2019 18:29:40: 13000000 INFO @ Mon, 03 Jun 2019 18:29:44: 15000000 INFO @ Mon, 03 Jun 2019 18:29:45: 16000000 INFO @ Mon, 03 Jun 2019 18:29:48: 14000000 INFO @ Mon, 03 Jun 2019 18:29:51: 16000000 INFO @ Mon, 03 Jun 2019 18:29:52: 17000000 INFO @ Mon, 03 Jun 2019 18:29:56: 15000000 INFO @ Mon, 03 Jun 2019 18:29:58: 17000000 INFO @ Mon, 03 Jun 2019 18:29:59: 18000000 INFO @ Mon, 03 Jun 2019 18:30:04: 16000000 INFO @ Mon, 03 Jun 2019 18:30:05: 18000000 INFO @ Mon, 03 Jun 2019 18:30:06: 19000000 INFO @ Mon, 03 Jun 2019 18:30:12: 17000000 INFO @ Mon, 03 Jun 2019 18:30:13: 19000000 INFO @ Mon, 03 Jun 2019 18:30:13: 20000000 INFO @ Mon, 03 Jun 2019 18:30:20: 20000000 INFO @ Mon, 03 Jun 2019 18:30:20: 21000000 INFO @ Mon, 03 Jun 2019 18:30:20: 18000000 INFO @ Mon, 03 Jun 2019 18:30:27: 22000000 INFO @ Mon, 03 Jun 2019 18:30:27: 21000000 INFO @ Mon, 03 Jun 2019 18:30:28: 19000000 INFO @ Mon, 03 Jun 2019 18:30:34: 23000000 INFO @ Mon, 03 Jun 2019 18:30:34: 22000000 INFO @ Mon, 03 Jun 2019 18:30:37: 20000000 INFO @ Mon, 03 Jun 2019 18:30:41: 24000000 INFO @ Mon, 03 Jun 2019 18:30:41: 23000000 INFO @ Mon, 03 Jun 2019 18:30:45: 21000000 INFO @ Mon, 03 Jun 2019 18:30:48: 25000000 INFO @ Mon, 03 Jun 2019 18:30:49: 24000000 INFO @ Mon, 03 Jun 2019 18:30:53: 22000000 INFO @ Mon, 03 Jun 2019 18:30:55: 26000000 INFO @ Mon, 03 Jun 2019 18:30:57: 25000000 INFO @ Mon, 03 Jun 2019 18:31:01: 23000000 INFO @ Mon, 03 Jun 2019 18:31:02: 27000000 INFO @ Mon, 03 Jun 2019 18:31:04: 26000000 INFO @ Mon, 03 Jun 2019 18:31:09: 28000000 INFO @ Mon, 03 Jun 2019 18:31:09: 24000000 INFO @ Mon, 03 Jun 2019 18:31:11: 27000000 INFO @ Mon, 03 Jun 2019 18:31:15: 29000000 INFO @ Mon, 03 Jun 2019 18:31:17: 25000000 INFO @ Mon, 03 Jun 2019 18:31:18: 28000000 INFO @ Mon, 03 Jun 2019 18:31:22: 30000000 INFO @ Mon, 03 Jun 2019 18:31:25: 26000000 INFO @ Mon, 03 Jun 2019 18:31:25: 29000000 INFO @ Mon, 03 Jun 2019 18:31:30: 31000000 INFO @ Mon, 03 Jun 2019 18:31:33: 30000000 INFO @ Mon, 03 Jun 2019 18:31:33: 27000000 INFO @ Mon, 03 Jun 2019 18:31:36: 32000000 INFO @ Mon, 03 Jun 2019 18:31:40: 31000000 INFO @ Mon, 03 Jun 2019 18:31:41: 28000000 INFO @ Mon, 03 Jun 2019 18:31:43: 33000000 INFO @ Mon, 03 Jun 2019 18:31:47: 32000000 INFO @ Mon, 03 Jun 2019 18:31:49: 29000000 INFO @ Mon, 03 Jun 2019 18:31:50: 34000000 INFO @ Mon, 03 Jun 2019 18:31:54: 33000000 INFO @ Mon, 03 Jun 2019 18:31:57: 35000000 INFO @ Mon, 03 Jun 2019 18:31:57: 30000000 INFO @ Mon, 03 Jun 2019 18:32:01: 34000000 INFO @ Mon, 03 Jun 2019 18:32:04: 36000000 INFO @ Mon, 03 Jun 2019 18:32:06: 31000000 INFO @ Mon, 03 Jun 2019 18:32:09: 35000000 INFO @ Mon, 03 Jun 2019 18:32:11: 37000000 INFO @ Mon, 03 Jun 2019 18:32:14: 32000000 INFO @ Mon, 03 Jun 2019 18:32:17: 36000000 INFO @ Mon, 03 Jun 2019 18:32:18: 38000000 INFO @ Mon, 03 Jun 2019 18:32:22: 33000000 INFO @ Mon, 03 Jun 2019 18:32:24: 37000000 INFO @ Mon, 03 Jun 2019 18:32:25: 39000000 INFO @ Mon, 03 Jun 2019 18:32:30: 34000000 INFO @ Mon, 03 Jun 2019 18:32:31: 38000000 INFO @ Mon, 03 Jun 2019 18:32:32: 40000000 INFO @ Mon, 03 Jun 2019 18:32:38: 35000000 INFO @ Mon, 03 Jun 2019 18:32:39: 39000000 INFO @ Mon, 03 Jun 2019 18:32:39: 41000000 INFO @ Mon, 03 Jun 2019 18:32:46: 42000000 INFO @ Mon, 03 Jun 2019 18:32:46: 40000000 INFO @ Mon, 03 Jun 2019 18:32:46: 36000000 INFO @ Mon, 03 Jun 2019 18:32:53: 43000000 INFO @ Mon, 03 Jun 2019 18:32:53: 41000000 INFO @ Mon, 03 Jun 2019 18:32:54: 37000000 INFO @ Mon, 03 Jun 2019 18:33:00: 44000000 INFO @ Mon, 03 Jun 2019 18:33:01: 42000000 INFO @ Mon, 03 Jun 2019 18:33:02: 38000000 INFO @ Mon, 03 Jun 2019 18:33:07: 45000000 INFO @ Mon, 03 Jun 2019 18:33:08: 43000000 INFO @ Mon, 03 Jun 2019 18:33:11: 39000000 INFO @ Mon, 03 Jun 2019 18:33:13: 46000000 INFO @ Mon, 03 Jun 2019 18:33:15: 44000000 INFO @ Mon, 03 Jun 2019 18:33:19: 40000000 INFO @ Mon, 03 Jun 2019 18:33:20: 47000000 INFO @ Mon, 03 Jun 2019 18:33:22: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 18:33:22: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 18:33:22: #1 total tags in treatment: 47140792 INFO @ Mon, 03 Jun 2019 18:33:22: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 18:33:22: #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 18:33:22: 45000000 INFO @ Mon, 03 Jun 2019 18:33:23: #1 tags after filtering in treatment: 47140792 INFO @ Mon, 03 Jun 2019 18:33:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 18:33:23: #1 finished! INFO @ Mon, 03 Jun 2019 18:33:23: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 18:33:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 18:33:27: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 18:33:27: 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 18:33:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.05_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/SRX467050/SRX467050.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 18:33:27: 41000000 INFO @ Mon, 03 Jun 2019 18:33:30: 46000000 INFO @ Mon, 03 Jun 2019 18:33:35: 42000000 INFO @ Mon, 03 Jun 2019 18:33:37: 47000000 INFO @ Mon, 03 Jun 2019 18:33:38: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 18:33:38: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 18:33:38: #1 total tags in treatment: 47140792 INFO @ Mon, 03 Jun 2019 18:33:38: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 18:33:38: #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 18:33:39: #1 tags after filtering in treatment: 47140792 INFO @ Mon, 03 Jun 2019 18:33:39: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 18:33:39: #1 finished! INFO @ Mon, 03 Jun 2019 18:33:39: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 18:33:39: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 18:33:43: 43000000 INFO @ Mon, 03 Jun 2019 18:33:43: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 18:33:43: 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 18:33:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.20_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/dm3/SRX467050/SRX467050.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 18:33:51: 44000000 INFO @ Mon, 03 Jun 2019 18:33:59: 45000000 INFO @ Mon, 03 Jun 2019 18:34:06: 46000000 INFO @ Mon, 03 Jun 2019 18:34:14: 47000000 INFO @ Mon, 03 Jun 2019 18:34:16: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 18:34:16: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 18:34:16: #1 total tags in treatment: 47140792 INFO @ Mon, 03 Jun 2019 18:34:16: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 18:34:16: #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 18:34:17: #1 tags after filtering in treatment: 47140792 INFO @ Mon, 03 Jun 2019 18:34:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 18:34:17: #1 finished! INFO @ Mon, 03 Jun 2019 18:34:17: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 18:34:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 18:34:21: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 18:34:21: 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 @ Mon, 03 Jun 2019 18:34:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.10_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/SRX467050/SRX467050.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467050/SRX467050.10_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。