Job ID = 2589930 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-08-12T09:51:45 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 ) 2019-08-12T09:52:23 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 : 47,950,615 reads read : 47,950,615 reads written : 47,950,615 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: 00:11:10 47950615 reads; of these: 47950615 (100.00%) were unpaired; of these: 3139766 (6.55%) aligned 0 times 37485067 (78.17%) aligned exactly 1 time 7325782 (15.28%) aligned >1 times 93.45% overall alignment rate Time searching: 00:11:10 Overall time: 00:11:10 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 8188847 / 44810849 = 0.1827 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, 12 Aug 2019 19:37:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 12 Aug 2019 19:37:24: #1 read tag files... INFO @ Mon, 12 Aug 2019 19:37:24: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 19:37:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 12 Aug 2019 19:37:25: #1 read tag files... INFO @ Mon, 12 Aug 2019 19:37:25: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 19:37:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 12 Aug 2019 19:37:26: #1 read tag files... INFO @ Mon, 12 Aug 2019 19:37:26: #1 read treatment tags... INFO @ Mon, 12 Aug 2019 19:37:32: 1000000 INFO @ Mon, 12 Aug 2019 19:37:33: 1000000 INFO @ Mon, 12 Aug 2019 19:37:33: 1000000 INFO @ Mon, 12 Aug 2019 19:37:39: 2000000 INFO @ Mon, 12 Aug 2019 19:37:40: 2000000 INFO @ Mon, 12 Aug 2019 19:37:41: 2000000 INFO @ Mon, 12 Aug 2019 19:37:47: 3000000 INFO @ Mon, 12 Aug 2019 19:37:47: 3000000 INFO @ Mon, 12 Aug 2019 19:37:48: 3000000 INFO @ Mon, 12 Aug 2019 19:37:54: 4000000 INFO @ Mon, 12 Aug 2019 19:37:54: 4000000 INFO @ Mon, 12 Aug 2019 19:37:55: 4000000 INFO @ Mon, 12 Aug 2019 19:38:01: 5000000 INFO @ Mon, 12 Aug 2019 19:38:02: 5000000 INFO @ Mon, 12 Aug 2019 19:38:03: 5000000 INFO @ Mon, 12 Aug 2019 19:38:08: 6000000 INFO @ Mon, 12 Aug 2019 19:38:09: 6000000 INFO @ Mon, 12 Aug 2019 19:38:10: 6000000 INFO @ Mon, 12 Aug 2019 19:38:14: 7000000 INFO @ Mon, 12 Aug 2019 19:38:16: 7000000 INFO @ Mon, 12 Aug 2019 19:38:17: 7000000 INFO @ Mon, 12 Aug 2019 19:38:21: 8000000 INFO @ Mon, 12 Aug 2019 19:38:23: 8000000 INFO @ Mon, 12 Aug 2019 19:38:25: 8000000 INFO @ Mon, 12 Aug 2019 19:38:28: 9000000 INFO @ Mon, 12 Aug 2019 19:38:31: 9000000 INFO @ Mon, 12 Aug 2019 19:38:32: 9000000 INFO @ Mon, 12 Aug 2019 19:38:34: 10000000 INFO @ Mon, 12 Aug 2019 19:38:38: 10000000 INFO @ Mon, 12 Aug 2019 19:38:39: 10000000 INFO @ Mon, 12 Aug 2019 19:38:41: 11000000 INFO @ Mon, 12 Aug 2019 19:38:45: 11000000 INFO @ Mon, 12 Aug 2019 19:38:46: 11000000 INFO @ Mon, 12 Aug 2019 19:38:48: 12000000 INFO @ Mon, 12 Aug 2019 19:38:52: 12000000 INFO @ Mon, 12 Aug 2019 19:38:53: 12000000 INFO @ Mon, 12 Aug 2019 19:38:54: 13000000 INFO @ Mon, 12 Aug 2019 19:38:59: 13000000 INFO @ Mon, 12 Aug 2019 19:39:01: 13000000 INFO @ Mon, 12 Aug 2019 19:39:01: 14000000 INFO @ Mon, 12 Aug 2019 19:39:06: 14000000 INFO @ Mon, 12 Aug 2019 19:39:07: 15000000 INFO @ Mon, 12 Aug 2019 19:39:08: 14000000 INFO @ Mon, 12 Aug 2019 19:39:14: 15000000 INFO @ Mon, 12 Aug 2019 19:39:14: 16000000 INFO @ Mon, 12 Aug 2019 19:39:15: 15000000 INFO @ Mon, 12 Aug 2019 19:39:21: 16000000 INFO @ Mon, 12 Aug 2019 19:39:21: 17000000 INFO @ Mon, 12 Aug 2019 19:39:22: 16000000 INFO @ Mon, 12 Aug 2019 19:39:28: 18000000 INFO @ Mon, 12 Aug 2019 19:39:28: 17000000 INFO @ Mon, 12 Aug 2019 19:39:29: 17000000 INFO @ Mon, 12 Aug 2019 19:39:34: 19000000 INFO @ Mon, 12 Aug 2019 19:39:35: 18000000 INFO @ Mon, 12 Aug 2019 19:39:37: 18000000 INFO @ Mon, 12 Aug 2019 19:39:41: 20000000 INFO @ Mon, 12 Aug 2019 19:39:43: 19000000 INFO @ Mon, 12 Aug 2019 19:39:44: 19000000 INFO @ Mon, 12 Aug 2019 19:39:48: 21000000 INFO @ Mon, 12 Aug 2019 19:39:50: 20000000 INFO @ Mon, 12 Aug 2019 19:39:51: 20000000 INFO @ Mon, 12 Aug 2019 19:39:54: 22000000 INFO @ Mon, 12 Aug 2019 19:39:57: 21000000 INFO @ Mon, 12 Aug 2019 19:39:59: 21000000 INFO @ Mon, 12 Aug 2019 19:40:01: 23000000 INFO @ Mon, 12 Aug 2019 19:40:04: 22000000 INFO @ Mon, 12 Aug 2019 19:40:06: 22000000 INFO @ Mon, 12 Aug 2019 19:40:08: 24000000 INFO @ Mon, 12 Aug 2019 19:40:11: 23000000 INFO @ Mon, 12 Aug 2019 19:40:13: 23000000 INFO @ Mon, 12 Aug 2019 19:40:14: 25000000 INFO @ Mon, 12 Aug 2019 19:40:19: 24000000 INFO @ Mon, 12 Aug 2019 19:40:20: 24000000 INFO @ Mon, 12 Aug 2019 19:40:21: 26000000 INFO @ Mon, 12 Aug 2019 19:40:26: 25000000 INFO @ Mon, 12 Aug 2019 19:40:27: 27000000 INFO @ Mon, 12 Aug 2019 19:40:27: 25000000 INFO @ Mon, 12 Aug 2019 19:40:33: 26000000 INFO @ Mon, 12 Aug 2019 19:40:34: 28000000 INFO @ Mon, 12 Aug 2019 19:40:34: 26000000 INFO @ Mon, 12 Aug 2019 19:40:40: 27000000 INFO @ Mon, 12 Aug 2019 19:40:41: 29000000 INFO @ Mon, 12 Aug 2019 19:40:42: 27000000 INFO @ Mon, 12 Aug 2019 19:40:47: 28000000 INFO @ Mon, 12 Aug 2019 19:40:47: 30000000 INFO @ Mon, 12 Aug 2019 19:40:49: 28000000 INFO @ Mon, 12 Aug 2019 19:40:54: 31000000 INFO @ Mon, 12 Aug 2019 19:40:54: 29000000 INFO @ Mon, 12 Aug 2019 19:40:56: 29000000 INFO @ Mon, 12 Aug 2019 19:41:00: 32000000 INFO @ Mon, 12 Aug 2019 19:41:01: 30000000 INFO @ Mon, 12 Aug 2019 19:41:03: 30000000 INFO @ Mon, 12 Aug 2019 19:41:07: 33000000 INFO @ Mon, 12 Aug 2019 19:41:08: 31000000 INFO @ Mon, 12 Aug 2019 19:41:10: 31000000 INFO @ Mon, 12 Aug 2019 19:41:14: 34000000 INFO @ Mon, 12 Aug 2019 19:41:16: 32000000 INFO @ Mon, 12 Aug 2019 19:41:17: 32000000 INFO @ Mon, 12 Aug 2019 19:41:20: 35000000 INFO @ Mon, 12 Aug 2019 19:41:23: 33000000 INFO @ Mon, 12 Aug 2019 19:41:24: 33000000 INFO @ Mon, 12 Aug 2019 19:41:27: 36000000 INFO @ Mon, 12 Aug 2019 19:41:30: 34000000 INFO @ Mon, 12 Aug 2019 19:41:31: #1 tag size is determined as 50 bps INFO @ Mon, 12 Aug 2019 19:41:31: #1 tag size = 50 INFO @ Mon, 12 Aug 2019 19:41:31: #1 total tags in treatment: 36622002 INFO @ Mon, 12 Aug 2019 19:41:31: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 19:41:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 19:41:31: 34000000 INFO @ Mon, 12 Aug 2019 19:41:32: #1 tags after filtering in treatment: 36622002 INFO @ Mon, 12 Aug 2019 19:41:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 19:41:32: #1 finished! INFO @ Mon, 12 Aug 2019 19:41:32: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 19:41:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 19:41:35: #2 number of paired peaks: 0 WARNING @ Mon, 12 Aug 2019 19:41:35: 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, 12 Aug 2019 19:41:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.20_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/ce10/SRX331350/SRX331350.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 19:41:37: 35000000 INFO @ Mon, 12 Aug 2019 19:41:39: 35000000 INFO @ Mon, 12 Aug 2019 19:41:44: 36000000 INFO @ Mon, 12 Aug 2019 19:41:46: 36000000 INFO @ Mon, 12 Aug 2019 19:41:49: #1 tag size is determined as 50 bps INFO @ Mon, 12 Aug 2019 19:41:49: #1 tag size = 50 INFO @ Mon, 12 Aug 2019 19:41:49: #1 total tags in treatment: 36622002 INFO @ Mon, 12 Aug 2019 19:41:49: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 19:41:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 19:41:49: #1 tags after filtering in treatment: 36622002 INFO @ Mon, 12 Aug 2019 19:41:49: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 19:41:49: #1 finished! INFO @ Mon, 12 Aug 2019 19:41:49: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 19:41:49: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 19:41:51: #1 tag size is determined as 50 bps INFO @ Mon, 12 Aug 2019 19:41:51: #1 tag size = 50 INFO @ Mon, 12 Aug 2019 19:41:51: #1 total tags in treatment: 36622002 INFO @ Mon, 12 Aug 2019 19:41:51: #1 user defined the maximum tags... INFO @ Mon, 12 Aug 2019 19:41:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 12 Aug 2019 19:41:51: #1 tags after filtering in treatment: 36622002 INFO @ Mon, 12 Aug 2019 19:41:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 12 Aug 2019 19:41:51: #1 finished! INFO @ Mon, 12 Aug 2019 19:41:51: #2 Build Peak Model... INFO @ Mon, 12 Aug 2019 19:41:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 12 Aug 2019 19:41:52: #2 number of paired peaks: 0 WARNING @ Mon, 12 Aug 2019 19:41:52: 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, 12 Aug 2019 19:41:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.05_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/ce10/SRX331350/SRX331350.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 12 Aug 2019 19:41:54: #2 number of paired peaks: 0 WARNING @ Mon, 12 Aug 2019 19:41:54: 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, 12 Aug 2019 19:41:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.10_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/ce10/SRX331350/SRX331350.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX331350/SRX331350.10_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。