Job ID = 1298360 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T08:20:48 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 ) 2019-06-03T08:20:48 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 : 35,719,123 reads read : 35,719,123 reads written : 35,719,123 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: 00:06:48 35719123 reads; of these: 35719123 (100.00%) were unpaired; of these: 23255602 (65.11%) aligned 0 times 9846503 (27.57%) aligned exactly 1 time 2617018 (7.33%) aligned >1 times 34.89% overall alignment rate Time searching: 00:06:48 Overall time: 00:06:48 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] 2956629 / 12463521 = 0.2372 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 17:49:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.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 17:49:09: #1 read tag files... INFO @ Mon, 03 Jun 2019 17:49:09: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 17:49:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.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 17:49:09: #1 read tag files... INFO @ Mon, 03 Jun 2019 17:49:09: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 17:49:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.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 17:49:09: #1 read tag files... INFO @ Mon, 03 Jun 2019 17:49:09: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 17:49:16: 1000000 INFO @ Mon, 03 Jun 2019 17:49:16: 1000000 INFO @ Mon, 03 Jun 2019 17:49:18: 1000000 INFO @ Mon, 03 Jun 2019 17:49:23: 2000000 INFO @ Mon, 03 Jun 2019 17:49:24: 2000000 INFO @ Mon, 03 Jun 2019 17:49:27: 2000000 INFO @ Mon, 03 Jun 2019 17:49:31: 3000000 INFO @ Mon, 03 Jun 2019 17:49:31: 3000000 INFO @ Mon, 03 Jun 2019 17:49:35: 3000000 INFO @ Mon, 03 Jun 2019 17:49:38: 4000000 INFO @ Mon, 03 Jun 2019 17:49:39: 4000000 INFO @ Mon, 03 Jun 2019 17:49:43: 4000000 INFO @ Mon, 03 Jun 2019 17:49:45: 5000000 INFO @ Mon, 03 Jun 2019 17:49:46: 5000000 INFO @ Mon, 03 Jun 2019 17:49:51: 5000000 INFO @ Mon, 03 Jun 2019 17:49:52: 6000000 INFO @ Mon, 03 Jun 2019 17:49:53: 6000000 INFO @ Mon, 03 Jun 2019 17:49:59: 6000000 INFO @ Mon, 03 Jun 2019 17:50:00: 7000000 INFO @ Mon, 03 Jun 2019 17:50:00: 7000000 INFO @ Mon, 03 Jun 2019 17:50:07: 8000000 INFO @ Mon, 03 Jun 2019 17:50:07: 7000000 INFO @ Mon, 03 Jun 2019 17:50:08: 8000000 INFO @ Mon, 03 Jun 2019 17:50:14: 9000000 INFO @ Mon, 03 Jun 2019 17:50:15: 9000000 INFO @ Mon, 03 Jun 2019 17:50:15: 8000000 INFO @ Mon, 03 Jun 2019 17:50:18: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 17:50:18: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 17:50:18: #1 total tags in treatment: 9506892 INFO @ Mon, 03 Jun 2019 17:50:18: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 17:50:18: #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 17:50:18: #1 tags after filtering in treatment: 9506892 INFO @ Mon, 03 Jun 2019 17:50:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 17:50:18: #1 finished! INFO @ Mon, 03 Jun 2019 17:50:18: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 17:50:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 17:50:19: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 17:50:19: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 17:50:19: #1 total tags in treatment: 9506892 INFO @ Mon, 03 Jun 2019 17:50:19: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 17:50:19: #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 17:50:19: #2 number of paired peaks: 82 WARNING @ Mon, 03 Jun 2019 17:50:19: Too few paired peaks (82) 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 17:50:19: Process for pairing-model is terminated! INFO @ Mon, 03 Jun 2019 17:50:19: #1 tags after filtering in treatment: 9506892 INFO @ Mon, 03 Jun 2019 17:50:19: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 17:50:19: #1 finished! INFO @ Mon, 03 Jun 2019 17:50:19: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 17:50:19: #2 looking for paired plus/minus strand peaks... cut: /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.20_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/SRX467026/SRX467026.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 17:50:20: #2 number of paired peaks: 82 WARNING @ Mon, 03 Jun 2019 17:50:20: Too few paired peaks (82) 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 17:50:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.10_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/SRX467026/SRX467026.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 17:50:23: 9000000 INFO @ Mon, 03 Jun 2019 17:50:27: #1 tag size is determined as 50 bps INFO @ Mon, 03 Jun 2019 17:50:27: #1 tag size = 50 INFO @ Mon, 03 Jun 2019 17:50:27: #1 total tags in treatment: 9506892 INFO @ Mon, 03 Jun 2019 17:50:27: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 17:50:27: #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 17:50:27: #1 tags after filtering in treatment: 9506892 INFO @ Mon, 03 Jun 2019 17:50:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 17:50:27: #1 finished! INFO @ Mon, 03 Jun 2019 17:50:27: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 17:50:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 17:50:28: #2 number of paired peaks: 82 WARNING @ Mon, 03 Jun 2019 17:50:28: Too few paired peaks (82) 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 17:50:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.05_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/SRX467026/SRX467026.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX467026/SRX467026.05_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。