Job ID = 1295405 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T04:33:20 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 ) 2019-06-03T04:37:09 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 ) 2019-06-03T04:37:09 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 : 21,914,988 reads read : 21,914,988 reads written : 21,914,988 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: 00:04:50 21914988 reads; of these: 21914988 (100.00%) were unpaired; of these: 2148739 (9.80%) aligned 0 times 17615091 (80.38%) aligned exactly 1 time 2151158 (9.82%) aligned >1 times 90.20% overall alignment rate Time searching: 00:04:50 Overall time: 00:04:50 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] 3543649 / 19766249 = 0.1793 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 13:51:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.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 13:51:23: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:51:23: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:51:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.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 13:51:23: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:51:23: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:51:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.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 13:51:23: #1 read tag files... INFO @ Mon, 03 Jun 2019 13:51:23: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 13:51:31: 1000000 INFO @ Mon, 03 Jun 2019 13:51:32: 1000000 INFO @ Mon, 03 Jun 2019 13:51:34: 1000000 INFO @ Mon, 03 Jun 2019 13:51:39: 2000000 INFO @ Mon, 03 Jun 2019 13:51:40: 2000000 INFO @ Mon, 03 Jun 2019 13:51:45: 2000000 INFO @ Mon, 03 Jun 2019 13:51:47: 3000000 INFO @ Mon, 03 Jun 2019 13:51:49: 3000000 INFO @ Mon, 03 Jun 2019 13:51:55: 3000000 INFO @ Mon, 03 Jun 2019 13:51:55: 4000000 INFO @ Mon, 03 Jun 2019 13:51:57: 4000000 INFO @ Mon, 03 Jun 2019 13:52:04: 5000000 INFO @ Mon, 03 Jun 2019 13:52:05: 5000000 INFO @ Mon, 03 Jun 2019 13:52:06: 4000000 INFO @ Mon, 03 Jun 2019 13:52:11: 6000000 INFO @ Mon, 03 Jun 2019 13:52:14: 6000000 INFO @ Mon, 03 Jun 2019 13:52:17: 5000000 INFO @ Mon, 03 Jun 2019 13:52:19: 7000000 INFO @ Mon, 03 Jun 2019 13:52:22: 7000000 INFO @ Mon, 03 Jun 2019 13:52:27: 8000000 INFO @ Mon, 03 Jun 2019 13:52:27: 6000000 INFO @ Mon, 03 Jun 2019 13:52:30: 8000000 INFO @ Mon, 03 Jun 2019 13:52:35: 9000000 INFO @ Mon, 03 Jun 2019 13:52:38: 7000000 INFO @ Mon, 03 Jun 2019 13:52:38: 9000000 INFO @ Mon, 03 Jun 2019 13:52:43: 10000000 INFO @ Mon, 03 Jun 2019 13:52:46: 10000000 INFO @ Mon, 03 Jun 2019 13:52:48: 8000000 INFO @ Mon, 03 Jun 2019 13:52:51: 11000000 INFO @ Mon, 03 Jun 2019 13:52:54: 11000000 INFO @ Mon, 03 Jun 2019 13:52:58: 9000000 INFO @ Mon, 03 Jun 2019 13:52:58: 12000000 INFO @ Mon, 03 Jun 2019 13:53:03: 12000000 INFO @ Mon, 03 Jun 2019 13:53:06: 13000000 INFO @ Mon, 03 Jun 2019 13:53:08: 10000000 INFO @ Mon, 03 Jun 2019 13:53:11: 13000000 INFO @ Mon, 03 Jun 2019 13:53:14: 14000000 INFO @ Mon, 03 Jun 2019 13:53:18: 11000000 INFO @ Mon, 03 Jun 2019 13:53:19: 14000000 INFO @ Mon, 03 Jun 2019 13:53:22: 15000000 INFO @ Mon, 03 Jun 2019 13:53:27: 15000000 INFO @ Mon, 03 Jun 2019 13:53:28: 12000000 INFO @ Mon, 03 Jun 2019 13:53:30: 16000000 INFO @ Mon, 03 Jun 2019 13:53:32: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 13:53:32: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 13:53:32: #1 total tags in treatment: 16222600 INFO @ Mon, 03 Jun 2019 13:53:32: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:53:32: #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 13:53:32: #1 tags after filtering in treatment: 16222600 INFO @ Mon, 03 Jun 2019 13:53:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:53:32: #1 finished! INFO @ Mon, 03 Jun 2019 13:53:32: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:53:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:53:33: #2 number of paired peaks: 11 WARNING @ Mon, 03 Jun 2019 13:53:33: Too few paired peaks (11) 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 13:53:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.20_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/SRX336281/SRX336281.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 13:53:35: 16000000 INFO @ Mon, 03 Jun 2019 13:53:37: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 13:53:37: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 13:53:37: #1 total tags in treatment: 16222600 INFO @ Mon, 03 Jun 2019 13:53:37: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:53:37: #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 13:53:38: #1 tags after filtering in treatment: 16222600 INFO @ Mon, 03 Jun 2019 13:53:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:53:38: #1 finished! INFO @ Mon, 03 Jun 2019 13:53:38: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:53:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:53:39: 13000000 INFO @ Mon, 03 Jun 2019 13:53:39: #2 number of paired peaks: 11 WARNING @ Mon, 03 Jun 2019 13:53:39: Too few paired peaks (11) 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 13:53:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.10_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/SRX336281/SRX336281.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 13:53:49: 14000000 INFO @ Mon, 03 Jun 2019 13:53:59: 15000000 INFO @ Mon, 03 Jun 2019 13:54:08: 16000000 INFO @ Mon, 03 Jun 2019 13:54:11: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 13:54:11: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 13:54:11: #1 total tags in treatment: 16222600 INFO @ Mon, 03 Jun 2019 13:54:11: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 13:54:11: #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 13:54:11: #1 tags after filtering in treatment: 16222600 INFO @ Mon, 03 Jun 2019 13:54:11: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 13:54:11: #1 finished! INFO @ Mon, 03 Jun 2019 13:54:11: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 13:54:11: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 13:54:12: #2 number of paired peaks: 11 WARNING @ Mon, 03 Jun 2019 13:54:12: Too few paired peaks (11) 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 13:54:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.05_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/SRX336281/SRX336281.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX336281/SRX336281.05_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。