Job ID = 1294630 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T00:21:32 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 ) 2019-06-03T00:22:38 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 ) 2019-06-03T00:24:43 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-06-03T00:25:56 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 : 16,527,336 reads read : 16,527,336 reads written : 16,527,336 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:25 16527336 reads; of these: 16527336 (100.00%) were unpaired; of these: 892143 (5.40%) aligned 0 times 13550881 (81.99%) aligned exactly 1 time 2084312 (12.61%) aligned >1 times 94.60% overall alignment rate Time searching: 00:04:26 Overall time: 00:04:26 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 8 files... [bam_rmdupse_core] 753599 / 15635193 = 0.0482 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 09:39:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.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 09:39:38: #1 read tag files... INFO @ Mon, 03 Jun 2019 09:39:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.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 09:39:38: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 09:39:38: #1 read tag files... INFO @ Mon, 03 Jun 2019 09:39:38: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 09:39:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.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 09:39:38: #1 read tag files... INFO @ Mon, 03 Jun 2019 09:39:38: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 09:39:49: 1000000 INFO @ Mon, 03 Jun 2019 09:39:49: 1000000 INFO @ Mon, 03 Jun 2019 09:39:49: 1000000 INFO @ Mon, 03 Jun 2019 09:40:01: 2000000 INFO @ Mon, 03 Jun 2019 09:40:01: 2000000 INFO @ Mon, 03 Jun 2019 09:40:01: 2000000 INFO @ Mon, 03 Jun 2019 09:40:12: 3000000 INFO @ Mon, 03 Jun 2019 09:40:12: 3000000 INFO @ Mon, 03 Jun 2019 09:40:12: 3000000 INFO @ Mon, 03 Jun 2019 09:40:22: 4000000 INFO @ Mon, 03 Jun 2019 09:40:23: 4000000 INFO @ Mon, 03 Jun 2019 09:40:23: 4000000 INFO @ Mon, 03 Jun 2019 09:40:33: 5000000 INFO @ Mon, 03 Jun 2019 09:40:33: 5000000 INFO @ Mon, 03 Jun 2019 09:40:34: 5000000 INFO @ Mon, 03 Jun 2019 09:40:43: 6000000 INFO @ Mon, 03 Jun 2019 09:40:44: 6000000 INFO @ Mon, 03 Jun 2019 09:40:44: 6000000 INFO @ Mon, 03 Jun 2019 09:40:54: 7000000 INFO @ Mon, 03 Jun 2019 09:40:55: 7000000 INFO @ Mon, 03 Jun 2019 09:40:55: 7000000 INFO @ Mon, 03 Jun 2019 09:41:05: 8000000 INFO @ Mon, 03 Jun 2019 09:41:05: 8000000 INFO @ Mon, 03 Jun 2019 09:41:06: 8000000 INFO @ Mon, 03 Jun 2019 09:41:15: 9000000 INFO @ Mon, 03 Jun 2019 09:41:16: 9000000 INFO @ Mon, 03 Jun 2019 09:41:17: 9000000 INFO @ Mon, 03 Jun 2019 09:41:25: 10000000 INFO @ Mon, 03 Jun 2019 09:41:26: 10000000 INFO @ Mon, 03 Jun 2019 09:41:27: 10000000 INFO @ Mon, 03 Jun 2019 09:41:36: 11000000 INFO @ Mon, 03 Jun 2019 09:41:37: 11000000 INFO @ Mon, 03 Jun 2019 09:41:38: 11000000 INFO @ Mon, 03 Jun 2019 09:41:47: 12000000 INFO @ Mon, 03 Jun 2019 09:41:47: 12000000 INFO @ Mon, 03 Jun 2019 09:41:49: 12000000 INFO @ Mon, 03 Jun 2019 09:41:57: 13000000 INFO @ Mon, 03 Jun 2019 09:41:58: 13000000 INFO @ Mon, 03 Jun 2019 09:41:59: 13000000 INFO @ Mon, 03 Jun 2019 09:42:08: 14000000 INFO @ Mon, 03 Jun 2019 09:42:08: 14000000 INFO @ Mon, 03 Jun 2019 09:42:10: 14000000 INFO @ Mon, 03 Jun 2019 09:42:17: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 09:42:17: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 09:42:17: #1 total tags in treatment: 14881594 INFO @ Mon, 03 Jun 2019 09:42:17: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 09:42:17: #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 09:42:17: #1 tags after filtering in treatment: 14881594 INFO @ Mon, 03 Jun 2019 09:42:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 09:42:17: #1 finished! INFO @ Mon, 03 Jun 2019 09:42:17: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 09:42:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 09:42:18: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 09:42:18: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 09:42:18: #1 total tags in treatment: 14881594 INFO @ Mon, 03 Jun 2019 09:42:18: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 09:42:18: #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 09:42:18: #1 tags after filtering in treatment: 14881594 INFO @ Mon, 03 Jun 2019 09:42:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 09:42:18: #1 finished! INFO @ Mon, 03 Jun 2019 09:42:18: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 09:42:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 09:42:18: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 09:42:18: 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 09:42:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.20_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/SRX287792/SRX287792.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 09:42:19: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 09:42:19: 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 09:42:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.10_peaks.narrowPeak: No such file or directory INFO @ Mon, 03 Jun 2019 09:42:19: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 09:42:19: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 09:42:19: #1 total tags in treatment: 14881594 INFO @ Mon, 03 Jun 2019 09:42:19: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 09:42:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 09:42:20: #1 tags after filtering in treatment: 14881594 INFO @ Mon, 03 Jun 2019 09:42:20: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 09:42:20: #1 finished! INFO @ Mon, 03 Jun 2019 09:42:20: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 09:42:20: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 09:42:21: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 09:42:21: 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 09:42:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.05_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/SRX287792/SRX287792.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287792/SRX287792.05_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。