Job ID = 2590934 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-08-12T15:12:59 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 ) 2019-08-12T15:12:59 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 ) 2019-08-12T15:12:59 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 : 37,573,032 reads read : 37,573,032 reads written : 37,573,032 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: 00:16:27 37573032 reads; of these: 37573032 (100.00%) were unpaired; of these: 2933031 (7.81%) aligned 0 times 23866783 (63.52%) aligned exactly 1 time 10773218 (28.67%) aligned >1 times 92.19% overall alignment rate Time searching: 00:16:27 Overall time: 00:16:27 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] 4778243 / 34640001 = 0.1379 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 @ Tue, 13 Aug 2019 00:40:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.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 @ Tue, 13 Aug 2019 00:40:44: #1 read tag files... INFO @ Tue, 13 Aug 2019 00:40:44: #1 read treatment tags... INFO @ Tue, 13 Aug 2019 00:40:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.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 @ Tue, 13 Aug 2019 00:40:45: #1 read tag files... INFO @ Tue, 13 Aug 2019 00:40:45: #1 read treatment tags... INFO @ Tue, 13 Aug 2019 00:40:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.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 @ Tue, 13 Aug 2019 00:40:46: #1 read tag files... INFO @ Tue, 13 Aug 2019 00:40:46: #1 read treatment tags... INFO @ Tue, 13 Aug 2019 00:40:52: 1000000 INFO @ Tue, 13 Aug 2019 00:40:53: 1000000 INFO @ Tue, 13 Aug 2019 00:40:53: 1000000 INFO @ Tue, 13 Aug 2019 00:41:01: 2000000 INFO @ Tue, 13 Aug 2019 00:41:01: 2000000 INFO @ Tue, 13 Aug 2019 00:41:02: 2000000 INFO @ Tue, 13 Aug 2019 00:41:08: 3000000 INFO @ Tue, 13 Aug 2019 00:41:10: 3000000 INFO @ Tue, 13 Aug 2019 00:41:10: 3000000 INFO @ Tue, 13 Aug 2019 00:41:15: 4000000 INFO @ Tue, 13 Aug 2019 00:41:17: 4000000 INFO @ Tue, 13 Aug 2019 00:41:19: 4000000 INFO @ Tue, 13 Aug 2019 00:41:22: 5000000 INFO @ Tue, 13 Aug 2019 00:41:28: 5000000 INFO @ Tue, 13 Aug 2019 00:41:29: 6000000 INFO @ Tue, 13 Aug 2019 00:41:29: 5000000 INFO @ Tue, 13 Aug 2019 00:41:36: 7000000 INFO @ Tue, 13 Aug 2019 00:41:40: 6000000 INFO @ Tue, 13 Aug 2019 00:41:41: 6000000 INFO @ Tue, 13 Aug 2019 00:41:43: 8000000 INFO @ Tue, 13 Aug 2019 00:41:50: 9000000 INFO @ Tue, 13 Aug 2019 00:41:50: 7000000 INFO @ Tue, 13 Aug 2019 00:41:51: 7000000 INFO @ Tue, 13 Aug 2019 00:41:57: 10000000 INFO @ Tue, 13 Aug 2019 00:42:01: 8000000 INFO @ Tue, 13 Aug 2019 00:42:01: 8000000 INFO @ Tue, 13 Aug 2019 00:42:04: 11000000 INFO @ Tue, 13 Aug 2019 00:42:11: 9000000 INFO @ Tue, 13 Aug 2019 00:42:11: 12000000 INFO @ Tue, 13 Aug 2019 00:42:11: 9000000 INFO @ Tue, 13 Aug 2019 00:42:18: 13000000 INFO @ Tue, 13 Aug 2019 00:42:21: 10000000 INFO @ Tue, 13 Aug 2019 00:42:21: 10000000 INFO @ Tue, 13 Aug 2019 00:42:25: 14000000 INFO @ Tue, 13 Aug 2019 00:42:31: 11000000 INFO @ Tue, 13 Aug 2019 00:42:31: 11000000 INFO @ Tue, 13 Aug 2019 00:42:32: 15000000 INFO @ Tue, 13 Aug 2019 00:42:39: 16000000 INFO @ Tue, 13 Aug 2019 00:42:39: 12000000 INFO @ Tue, 13 Aug 2019 00:42:40: 12000000 INFO @ Tue, 13 Aug 2019 00:42:46: 17000000 INFO @ Tue, 13 Aug 2019 00:42:47: 13000000 INFO @ Tue, 13 Aug 2019 00:42:49: 13000000 INFO @ Tue, 13 Aug 2019 00:42:53: 18000000 INFO @ Tue, 13 Aug 2019 00:42:56: 14000000 INFO @ Tue, 13 Aug 2019 00:42:59: 14000000 INFO @ Tue, 13 Aug 2019 00:43:00: 19000000 INFO @ Tue, 13 Aug 2019 00:43:06: 15000000 INFO @ Tue, 13 Aug 2019 00:43:08: 20000000 INFO @ Tue, 13 Aug 2019 00:43:09: 15000000 INFO @ Tue, 13 Aug 2019 00:43:15: 21000000 INFO @ Tue, 13 Aug 2019 00:43:17: 16000000 INFO @ Tue, 13 Aug 2019 00:43:20: 16000000 INFO @ Tue, 13 Aug 2019 00:43:22: 22000000 INFO @ Tue, 13 Aug 2019 00:43:27: 17000000 INFO @ Tue, 13 Aug 2019 00:43:29: 23000000 INFO @ Tue, 13 Aug 2019 00:43:30: 17000000 INFO @ Tue, 13 Aug 2019 00:43:36: 24000000 INFO @ Tue, 13 Aug 2019 00:43:38: 18000000 INFO @ Tue, 13 Aug 2019 00:43:41: 18000000 INFO @ Tue, 13 Aug 2019 00:43:44: 25000000 INFO @ Tue, 13 Aug 2019 00:43:49: 19000000 INFO @ Tue, 13 Aug 2019 00:43:51: 26000000 INFO @ Tue, 13 Aug 2019 00:43:52: 19000000 INFO @ Tue, 13 Aug 2019 00:43:58: 27000000 INFO @ Tue, 13 Aug 2019 00:43:59: 20000000 INFO @ Tue, 13 Aug 2019 00:44:02: 20000000 INFO @ Tue, 13 Aug 2019 00:44:05: 28000000 INFO @ Tue, 13 Aug 2019 00:44:10: 21000000 INFO @ Tue, 13 Aug 2019 00:44:12: 29000000 INFO @ Tue, 13 Aug 2019 00:44:13: 21000000 INFO @ Tue, 13 Aug 2019 00:44:18: #1 tag size is determined as 50 bps INFO @ Tue, 13 Aug 2019 00:44:18: #1 tag size = 50 INFO @ Tue, 13 Aug 2019 00:44:18: #1 total tags in treatment: 29861758 INFO @ Tue, 13 Aug 2019 00:44:18: #1 user defined the maximum tags... INFO @ Tue, 13 Aug 2019 00:44:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 13 Aug 2019 00:44:19: #1 tags after filtering in treatment: 29861758 INFO @ Tue, 13 Aug 2019 00:44:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 13 Aug 2019 00:44:19: #1 finished! INFO @ Tue, 13 Aug 2019 00:44:19: #2 Build Peak Model... INFO @ Tue, 13 Aug 2019 00:44:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 13 Aug 2019 00:44:21: 22000000 INFO @ Tue, 13 Aug 2019 00:44:21: #2 number of paired peaks: 68 WARNING @ Tue, 13 Aug 2019 00:44:21: Too few paired peaks (68) 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 @ Tue, 13 Aug 2019 00:44:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.20_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/SRX5431046/SRX5431046.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 13 Aug 2019 00:44:24: 22000000 INFO @ Tue, 13 Aug 2019 00:44:32: 23000000 INFO @ Tue, 13 Aug 2019 00:44:35: 23000000 INFO @ Tue, 13 Aug 2019 00:44:43: 24000000 INFO @ Tue, 13 Aug 2019 00:44:46: 24000000 INFO @ Tue, 13 Aug 2019 00:44:54: 25000000 INFO @ Tue, 13 Aug 2019 00:44:57: 25000000 INFO @ Tue, 13 Aug 2019 00:45:05: 26000000 INFO @ Tue, 13 Aug 2019 00:45:08: 26000000 INFO @ Tue, 13 Aug 2019 00:45:15: 27000000 INFO @ Tue, 13 Aug 2019 00:45:19: 27000000 INFO @ Tue, 13 Aug 2019 00:45:26: 28000000 INFO @ Tue, 13 Aug 2019 00:45:29: 28000000 INFO @ Tue, 13 Aug 2019 00:45:37: 29000000 INFO @ Tue, 13 Aug 2019 00:45:40: 29000000 INFO @ Tue, 13 Aug 2019 00:45:46: #1 tag size is determined as 50 bps INFO @ Tue, 13 Aug 2019 00:45:46: #1 tag size = 50 INFO @ Tue, 13 Aug 2019 00:45:46: #1 total tags in treatment: 29861758 INFO @ Tue, 13 Aug 2019 00:45:46: #1 user defined the maximum tags... INFO @ Tue, 13 Aug 2019 00:45:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 13 Aug 2019 00:45:47: #1 tags after filtering in treatment: 29861758 INFO @ Tue, 13 Aug 2019 00:45:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 13 Aug 2019 00:45:47: #1 finished! INFO @ Tue, 13 Aug 2019 00:45:47: #2 Build Peak Model... INFO @ Tue, 13 Aug 2019 00:45:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 13 Aug 2019 00:45:49: #1 tag size is determined as 50 bps INFO @ Tue, 13 Aug 2019 00:45:49: #1 tag size = 50 INFO @ Tue, 13 Aug 2019 00:45:49: #1 total tags in treatment: 29861758 INFO @ Tue, 13 Aug 2019 00:45:49: #1 user defined the maximum tags... INFO @ Tue, 13 Aug 2019 00:45:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 13 Aug 2019 00:45:49: #2 number of paired peaks: 68 WARNING @ Tue, 13 Aug 2019 00:45:49: Too few paired peaks (68) 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 @ Tue, 13 Aug 2019 00:45:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.10_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/SRX5431046/SRX5431046.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 13 Aug 2019 00:45:49: #1 tags after filtering in treatment: 29861758 INFO @ Tue, 13 Aug 2019 00:45:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 13 Aug 2019 00:45:49: #1 finished! INFO @ Tue, 13 Aug 2019 00:45:49: #2 Build Peak Model... INFO @ Tue, 13 Aug 2019 00:45:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 13 Aug 2019 00:45:52: #2 number of paired peaks: 68 WARNING @ Tue, 13 Aug 2019 00:45:52: Too few paired peaks (68) 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 @ Tue, 13 Aug 2019 00:45:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.05_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/SRX5431046/SRX5431046.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431046/SRX5431046.05_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。