Job ID = 1293887 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-02T18:02:09 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 ) 2019-06-02T18:02:09 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 : 109,937,835 reads read : 109,937,835 reads written : 109,937,835 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: 00:23:56 109937835 reads; of these: 109937835 (100.00%) were unpaired; of these: 41333653 (37.60%) aligned 0 times 58961714 (53.63%) aligned exactly 1 time 9642468 (8.77%) aligned >1 times 62.40% overall alignment rate Time searching: 00:23:56 Overall time: 00:23:56 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 28 files... [bam_rmdupse_core] 35407335 / 68604182 = 0.5161 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 03:47:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.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 03:47:44: #1 read tag files... INFO @ Mon, 03 Jun 2019 03:47:44: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 03:47:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.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 03:47:44: #1 read tag files... INFO @ Mon, 03 Jun 2019 03:47:44: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 03:47:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.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 03:47:44: #1 read tag files... INFO @ Mon, 03 Jun 2019 03:47:44: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 03:47:51: 1000000 INFO @ Mon, 03 Jun 2019 03:47:52: 1000000 INFO @ Mon, 03 Jun 2019 03:47:54: 1000000 INFO @ Mon, 03 Jun 2019 03:47:59: 2000000 INFO @ Mon, 03 Jun 2019 03:48:01: 2000000 INFO @ Mon, 03 Jun 2019 03:48:03: 2000000 INFO @ Mon, 03 Jun 2019 03:48:06: 3000000 INFO @ Mon, 03 Jun 2019 03:48:10: 3000000 INFO @ Mon, 03 Jun 2019 03:48:12: 3000000 INFO @ Mon, 03 Jun 2019 03:48:13: 4000000 INFO @ Mon, 03 Jun 2019 03:48:18: 4000000 INFO @ Mon, 03 Jun 2019 03:48:20: 5000000 INFO @ Mon, 03 Jun 2019 03:48:21: 4000000 INFO @ Mon, 03 Jun 2019 03:48:27: 5000000 INFO @ Mon, 03 Jun 2019 03:48:28: 6000000 INFO @ Mon, 03 Jun 2019 03:48:31: 5000000 INFO @ Mon, 03 Jun 2019 03:48:35: 7000000 INFO @ Mon, 03 Jun 2019 03:48:35: 6000000 INFO @ Mon, 03 Jun 2019 03:48:40: 6000000 INFO @ Mon, 03 Jun 2019 03:48:42: 8000000 INFO @ Mon, 03 Jun 2019 03:48:43: 7000000 INFO @ Mon, 03 Jun 2019 03:48:49: 9000000 INFO @ Mon, 03 Jun 2019 03:48:49: 7000000 INFO @ Mon, 03 Jun 2019 03:48:51: 8000000 INFO @ Mon, 03 Jun 2019 03:48:56: 10000000 INFO @ Mon, 03 Jun 2019 03:48:59: 8000000 INFO @ Mon, 03 Jun 2019 03:48:59: 9000000 INFO @ Mon, 03 Jun 2019 03:49:03: 11000000 INFO @ Mon, 03 Jun 2019 03:49:07: 10000000 INFO @ Mon, 03 Jun 2019 03:49:08: 9000000 INFO @ Mon, 03 Jun 2019 03:49:11: 12000000 INFO @ Mon, 03 Jun 2019 03:49:15: 11000000 INFO @ Mon, 03 Jun 2019 03:49:17: 10000000 INFO @ Mon, 03 Jun 2019 03:49:18: 13000000 INFO @ Mon, 03 Jun 2019 03:49:24: 12000000 INFO @ Mon, 03 Jun 2019 03:49:25: 14000000 INFO @ Mon, 03 Jun 2019 03:49:26: 11000000 INFO @ Mon, 03 Jun 2019 03:49:32: 15000000 INFO @ Mon, 03 Jun 2019 03:49:33: 13000000 INFO @ Mon, 03 Jun 2019 03:49:36: 12000000 INFO @ Mon, 03 Jun 2019 03:49:40: 16000000 INFO @ Mon, 03 Jun 2019 03:49:41: 14000000 INFO @ Mon, 03 Jun 2019 03:49:45: 13000000 INFO @ Mon, 03 Jun 2019 03:49:47: 17000000 INFO @ Mon, 03 Jun 2019 03:49:50: 15000000 INFO @ Mon, 03 Jun 2019 03:49:54: 18000000 INFO @ Mon, 03 Jun 2019 03:49:54: 14000000 INFO @ Mon, 03 Jun 2019 03:49:58: 16000000 INFO @ Mon, 03 Jun 2019 03:50:01: 19000000 INFO @ Mon, 03 Jun 2019 03:50:03: 15000000 INFO @ Mon, 03 Jun 2019 03:50:06: 17000000 INFO @ Mon, 03 Jun 2019 03:50:08: 20000000 INFO @ Mon, 03 Jun 2019 03:50:13: 16000000 INFO @ Mon, 03 Jun 2019 03:50:14: 18000000 INFO @ Mon, 03 Jun 2019 03:50:15: 21000000 INFO @ Mon, 03 Jun 2019 03:50:22: 17000000 INFO @ Mon, 03 Jun 2019 03:50:22: 19000000 INFO @ Mon, 03 Jun 2019 03:50:23: 22000000 INFO @ Mon, 03 Jun 2019 03:50:30: 23000000 INFO @ Mon, 03 Jun 2019 03:50:30: 20000000 INFO @ Mon, 03 Jun 2019 03:50:31: 18000000 INFO @ Mon, 03 Jun 2019 03:50:37: 24000000 INFO @ Mon, 03 Jun 2019 03:50:39: 21000000 INFO @ Mon, 03 Jun 2019 03:50:41: 19000000 INFO @ Mon, 03 Jun 2019 03:50:44: 25000000 INFO @ Mon, 03 Jun 2019 03:50:48: 22000000 INFO @ Mon, 03 Jun 2019 03:50:51: 20000000 INFO @ Mon, 03 Jun 2019 03:50:52: 26000000 INFO @ Mon, 03 Jun 2019 03:50:57: 23000000 INFO @ Mon, 03 Jun 2019 03:50:59: 27000000 INFO @ Mon, 03 Jun 2019 03:51:00: 21000000 INFO @ Mon, 03 Jun 2019 03:51:05: 24000000 INFO @ Mon, 03 Jun 2019 03:51:06: 28000000 INFO @ Mon, 03 Jun 2019 03:51:10: 22000000 INFO @ Mon, 03 Jun 2019 03:51:13: 25000000 INFO @ Mon, 03 Jun 2019 03:51:13: 29000000 INFO @ Mon, 03 Jun 2019 03:51:19: 23000000 INFO @ Mon, 03 Jun 2019 03:51:21: 30000000 INFO @ Mon, 03 Jun 2019 03:51:22: 26000000 INFO @ Mon, 03 Jun 2019 03:51:28: 31000000 INFO @ Mon, 03 Jun 2019 03:51:29: 24000000 INFO @ Mon, 03 Jun 2019 03:51:30: 27000000 INFO @ Mon, 03 Jun 2019 03:51:35: 32000000 INFO @ Mon, 03 Jun 2019 03:51:38: 25000000 INFO @ Mon, 03 Jun 2019 03:51:38: 28000000 INFO @ Mon, 03 Jun 2019 03:51:42: 33000000 INFO @ Mon, 03 Jun 2019 03:51:44: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 03:51:44: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 03:51:44: #1 total tags in treatment: 33196847 INFO @ Mon, 03 Jun 2019 03:51:44: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 03:51:44: #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 03:51:44: #1 tags after filtering in treatment: 33196847 INFO @ Mon, 03 Jun 2019 03:51:44: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 03:51:44: #1 finished! INFO @ Mon, 03 Jun 2019 03:51:44: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 03:51:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 03:51:46: 29000000 INFO @ Mon, 03 Jun 2019 03:51:47: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 03:51:47: 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 03:51:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.10_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/SRX135529/SRX135529.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 03:51:48: 26000000 INFO @ Mon, 03 Jun 2019 03:51:55: 30000000 INFO @ Mon, 03 Jun 2019 03:51:58: 27000000 INFO @ Mon, 03 Jun 2019 03:52:04: 31000000 INFO @ Mon, 03 Jun 2019 03:52:08: 28000000 INFO @ Mon, 03 Jun 2019 03:52:12: 32000000 INFO @ Mon, 03 Jun 2019 03:52:18: 29000000 INFO @ Mon, 03 Jun 2019 03:52:19: 33000000 INFO @ Mon, 03 Jun 2019 03:52:21: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 03:52:21: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 03:52:21: #1 total tags in treatment: 33196847 INFO @ Mon, 03 Jun 2019 03:52:21: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 03:52:21: #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 03:52:22: #1 tags after filtering in treatment: 33196847 INFO @ Mon, 03 Jun 2019 03:52:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 03:52:22: #1 finished! INFO @ Mon, 03 Jun 2019 03:52:22: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 03:52:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 03:52:25: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 03:52:25: 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 03:52:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.05_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/SRX135529/SRX135529.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 03:52:27: 30000000 INFO @ Mon, 03 Jun 2019 03:52:36: 31000000 INFO @ Mon, 03 Jun 2019 03:52:45: 32000000 INFO @ Mon, 03 Jun 2019 03:52:53: 33000000 INFO @ Mon, 03 Jun 2019 03:52:55: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 03:52:55: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 03:52:55: #1 total tags in treatment: 33196847 INFO @ Mon, 03 Jun 2019 03:52:55: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 03:52:55: #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 03:52:56: #1 tags after filtering in treatment: 33196847 INFO @ Mon, 03 Jun 2019 03:52:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 03:52:56: #1 finished! INFO @ Mon, 03 Jun 2019 03:52:56: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 03:52:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 03:52:59: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 03:52:59: 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 03:52:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.20_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/SRX135529/SRX135529.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135529/SRX135529.20_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。