Job ID = 1294327 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-02T21:27:43 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 : 23,856,700 reads read : 23,856,700 reads written : 23,856,700 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: 00:12:17 23856700 reads; of these: 23856700 (100.00%) were unpaired; of these: 920680 (3.86%) aligned 0 times 18046914 (75.65%) aligned exactly 1 time 4889106 (20.49%) aligned >1 times 96.14% overall alignment rate Time searching: 00:12:18 Overall time: 00:12:18 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] 1581137 / 22936020 = 0.0689 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 06:49:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.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 06:49:51: #1 read tag files... INFO @ Mon, 03 Jun 2019 06:49:51: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 06:49:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.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 06:49:51: #1 read tag files... INFO @ Mon, 03 Jun 2019 06:49:51: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 06:49:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.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 06:49:51: #1 read tag files... INFO @ Mon, 03 Jun 2019 06:49:51: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 06:50:02: 1000000 INFO @ Mon, 03 Jun 2019 06:50:03: 1000000 INFO @ Mon, 03 Jun 2019 06:50:04: 1000000 INFO @ Mon, 03 Jun 2019 06:50:15: 2000000 INFO @ Mon, 03 Jun 2019 06:50:15: 2000000 INFO @ Mon, 03 Jun 2019 06:50:17: 2000000 INFO @ Mon, 03 Jun 2019 06:50:26: 3000000 INFO @ Mon, 03 Jun 2019 06:50:26: 3000000 INFO @ Mon, 03 Jun 2019 06:50:29: 3000000 INFO @ Mon, 03 Jun 2019 06:50:37: 4000000 INFO @ Mon, 03 Jun 2019 06:50:38: 4000000 INFO @ Mon, 03 Jun 2019 06:50:42: 4000000 INFO @ Mon, 03 Jun 2019 06:50:49: 5000000 INFO @ Mon, 03 Jun 2019 06:50:50: 5000000 INFO @ Mon, 03 Jun 2019 06:50:54: 5000000 INFO @ Mon, 03 Jun 2019 06:51:00: 6000000 INFO @ Mon, 03 Jun 2019 06:51:02: 6000000 INFO @ Mon, 03 Jun 2019 06:51:06: 6000000 INFO @ Mon, 03 Jun 2019 06:51:11: 7000000 INFO @ Mon, 03 Jun 2019 06:51:13: 7000000 INFO @ Mon, 03 Jun 2019 06:51:19: 7000000 INFO @ Mon, 03 Jun 2019 06:51:22: 8000000 INFO @ Mon, 03 Jun 2019 06:51:25: 8000000 INFO @ Mon, 03 Jun 2019 06:51:31: 8000000 INFO @ Mon, 03 Jun 2019 06:51:33: 9000000 INFO @ Mon, 03 Jun 2019 06:51:36: 9000000 INFO @ Mon, 03 Jun 2019 06:51:43: 9000000 INFO @ Mon, 03 Jun 2019 06:51:44: 10000000 INFO @ Mon, 03 Jun 2019 06:51:48: 10000000 INFO @ Mon, 03 Jun 2019 06:51:56: 11000000 INFO @ Mon, 03 Jun 2019 06:51:57: 10000000 INFO @ Mon, 03 Jun 2019 06:52:00: 11000000 INFO @ Mon, 03 Jun 2019 06:52:08: 12000000 INFO @ Mon, 03 Jun 2019 06:52:09: 11000000 INFO @ Mon, 03 Jun 2019 06:52:12: 12000000 INFO @ Mon, 03 Jun 2019 06:52:20: 13000000 INFO @ Mon, 03 Jun 2019 06:52:23: 12000000 INFO @ Mon, 03 Jun 2019 06:52:24: 13000000 INFO @ Mon, 03 Jun 2019 06:52:32: 14000000 INFO @ Mon, 03 Jun 2019 06:52:35: 14000000 INFO @ Mon, 03 Jun 2019 06:52:35: 13000000 INFO @ Mon, 03 Jun 2019 06:52:43: 15000000 INFO @ Mon, 03 Jun 2019 06:52:48: 15000000 INFO @ Mon, 03 Jun 2019 06:52:48: 14000000 INFO @ Mon, 03 Jun 2019 06:52:55: 16000000 INFO @ Mon, 03 Jun 2019 06:53:00: 16000000 INFO @ Mon, 03 Jun 2019 06:53:01: 15000000 INFO @ Mon, 03 Jun 2019 06:53:06: 17000000 INFO @ Mon, 03 Jun 2019 06:53:13: 17000000 INFO @ Mon, 03 Jun 2019 06:53:13: 16000000 INFO @ Mon, 03 Jun 2019 06:53:17: 18000000 INFO @ Mon, 03 Jun 2019 06:53:25: 18000000 INFO @ Mon, 03 Jun 2019 06:53:26: 17000000 INFO @ Mon, 03 Jun 2019 06:53:29: 19000000 INFO @ Mon, 03 Jun 2019 06:53:37: 19000000 INFO @ Mon, 03 Jun 2019 06:53:39: 18000000 INFO @ Mon, 03 Jun 2019 06:53:40: 20000000 INFO @ Mon, 03 Jun 2019 06:53:49: 20000000 INFO @ Mon, 03 Jun 2019 06:53:51: 19000000 INFO @ Mon, 03 Jun 2019 06:53:51: 21000000 INFO @ Mon, 03 Jun 2019 06:53:55: #1 tag size is determined as 42 bps INFO @ Mon, 03 Jun 2019 06:53:55: #1 tag size = 42 INFO @ Mon, 03 Jun 2019 06:53:55: #1 total tags in treatment: 21354883 INFO @ Mon, 03 Jun 2019 06:53:55: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 06:53:55: #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 06:53:56: #1 tags after filtering in treatment: 21354883 INFO @ Mon, 03 Jun 2019 06:53:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 06:53:56: #1 finished! INFO @ Mon, 03 Jun 2019 06:53:56: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 06:53:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 06:53:59: #2 number of paired peaks: 37 WARNING @ Mon, 03 Jun 2019 06:53:59: Too few paired peaks (37) 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 06:53:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.05_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/SRX245835/SRX245835.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 06:54:02: 21000000 INFO @ Mon, 03 Jun 2019 06:54:04: 20000000 INFO @ Mon, 03 Jun 2019 06:54:07: #1 tag size is determined as 42 bps INFO @ Mon, 03 Jun 2019 06:54:07: #1 tag size = 42 INFO @ Mon, 03 Jun 2019 06:54:07: #1 total tags in treatment: 21354883 INFO @ Mon, 03 Jun 2019 06:54:07: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 06:54:07: #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 06:54:07: #1 tags after filtering in treatment: 21354883 INFO @ Mon, 03 Jun 2019 06:54:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 06:54:07: #1 finished! INFO @ Mon, 03 Jun 2019 06:54:07: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 06:54:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 06:54:10: #2 number of paired peaks: 37 WARNING @ Mon, 03 Jun 2019 06:54:10: Too few paired peaks (37) 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 06:54:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.10_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/SRX245835/SRX245835.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 06:54:17: 21000000 INFO @ Mon, 03 Jun 2019 06:54:21: #1 tag size is determined as 42 bps INFO @ Mon, 03 Jun 2019 06:54:21: #1 tag size = 42 INFO @ Mon, 03 Jun 2019 06:54:21: #1 total tags in treatment: 21354883 INFO @ Mon, 03 Jun 2019 06:54:21: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 06:54:21: #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 06:54:22: #1 tags after filtering in treatment: 21354883 INFO @ Mon, 03 Jun 2019 06:54:22: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 06:54:22: #1 finished! INFO @ Mon, 03 Jun 2019 06:54:22: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 06:54:22: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 06:54:24: #2 number of paired peaks: 37 WARNING @ Mon, 03 Jun 2019 06:54:24: Too few paired peaks (37) 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 06:54:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.20_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/SRX245835/SRX245835.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245835/SRX245835.20_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。