Job ID = 1304277 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T11:40:06 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 ) 2019-06-03T11:44:32 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 ) 2019-06-03T11:44:32 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 ) 2019-06-03T11:46:07 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 : 9,364,299 reads read : 9,364,299 reads written : 9,364,299 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: 00:02:44 9364299 reads; of these: 9364299 (100.00%) were unpaired; of these: 148849 (1.59%) aligned 0 times 7102736 (75.85%) aligned exactly 1 time 2112714 (22.56%) aligned >1 times 98.41% overall alignment rate Time searching: 00:02:44 Overall time: 00:02:44 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_rmdupse_core] 1174928 / 9215450 = 0.1275 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 20:52:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.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 20:52:38: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:52:38: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:52:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.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 20:52:38: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:52:38: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:52:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.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 20:52:39: #1 read tag files... INFO @ Mon, 03 Jun 2019 20:52:39: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 20:52:48: 1000000 INFO @ Mon, 03 Jun 2019 20:52:49: 1000000 INFO @ Mon, 03 Jun 2019 20:52:50: 1000000 INFO @ Mon, 03 Jun 2019 20:52:57: 2000000 INFO @ Mon, 03 Jun 2019 20:53:00: 2000000 INFO @ Mon, 03 Jun 2019 20:53:01: 2000000 INFO @ Mon, 03 Jun 2019 20:53:05: 3000000 INFO @ Mon, 03 Jun 2019 20:53:10: 3000000 INFO @ Mon, 03 Jun 2019 20:53:11: 3000000 INFO @ Mon, 03 Jun 2019 20:53:13: 4000000 INFO @ Mon, 03 Jun 2019 20:53:21: 4000000 INFO @ Mon, 03 Jun 2019 20:53:22: 4000000 INFO @ Mon, 03 Jun 2019 20:53:23: 5000000 INFO @ Mon, 03 Jun 2019 20:53:31: 5000000 INFO @ Mon, 03 Jun 2019 20:53:33: 5000000 INFO @ Mon, 03 Jun 2019 20:53:34: 6000000 INFO @ Mon, 03 Jun 2019 20:53:42: 6000000 INFO @ Mon, 03 Jun 2019 20:53:44: 6000000 INFO @ Mon, 03 Jun 2019 20:53:44: 7000000 INFO @ Mon, 03 Jun 2019 20:53:53: 7000000 INFO @ Mon, 03 Jun 2019 20:53:55: 8000000 INFO @ Mon, 03 Jun 2019 20:53:55: 7000000 INFO @ Mon, 03 Jun 2019 20:53:55: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 20:53:55: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 20:53:55: #1 total tags in treatment: 8040522 INFO @ Mon, 03 Jun 2019 20:53:55: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:53:55: #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 20:53:55: #1 tags after filtering in treatment: 8040522 INFO @ Mon, 03 Jun 2019 20:53:55: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:53:55: #1 finished! INFO @ Mon, 03 Jun 2019 20:53:55: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:53:55: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:53:56: #2 number of paired peaks: 62 WARNING @ Mon, 03 Jun 2019 20:53:56: Too few paired peaks (62) 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 20:53:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.20_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/SRX495181/SRX495181.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 20:54:04: 8000000 INFO @ Mon, 03 Jun 2019 20:54:04: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 20:54:04: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 20:54:04: #1 total tags in treatment: 8040522 INFO @ Mon, 03 Jun 2019 20:54:04: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:54:04: #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 20:54:04: #1 tags after filtering in treatment: 8040522 INFO @ Mon, 03 Jun 2019 20:54:04: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:54:04: #1 finished! INFO @ Mon, 03 Jun 2019 20:54:04: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:54:04: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:54:05: #2 number of paired peaks: 62 WARNING @ Mon, 03 Jun 2019 20:54:05: Too few paired peaks (62) 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 20:54:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.05_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/SRX495181/SRX495181.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 20:54:06: 8000000 INFO @ Mon, 03 Jun 2019 20:54:06: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 20:54:06: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 20:54:06: #1 total tags in treatment: 8040522 INFO @ Mon, 03 Jun 2019 20:54:06: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 20:54:06: #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 20:54:06: #1 tags after filtering in treatment: 8040522 INFO @ Mon, 03 Jun 2019 20:54:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 20:54:06: #1 finished! INFO @ Mon, 03 Jun 2019 20:54:06: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 20:54:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 20:54:07: #2 number of paired peaks: 62 WARNING @ Mon, 03 Jun 2019 20:54:07: Too few paired peaks (62) 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 20:54:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.10_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/SRX495181/SRX495181.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495181/SRX495181.10_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。