Job ID = 1293785 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-02T17:29:45 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 : 22,749,432 reads read : 22,749,432 reads written : 22,749,432 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: 00:06:50 22749432 reads; of these: 22749432 (100.00%) were unpaired; of these: 978473 (4.30%) aligned 0 times 17901762 (78.69%) aligned exactly 1 time 3869197 (17.01%) aligned >1 times 95.70% overall alignment rate Time searching: 00:06:51 Overall time: 00:06:51 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] 3776874 / 21770959 = 0.1735 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 02:44:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.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 02:44:40: #1 read tag files... INFO @ Mon, 03 Jun 2019 02:44:40: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 02:44:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.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 02:44:40: #1 read tag files... INFO @ Mon, 03 Jun 2019 02:44:40: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 02:44:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.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 02:44:40: #1 read tag files... INFO @ Mon, 03 Jun 2019 02:44:40: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 02:44:48: 1000000 INFO @ Mon, 03 Jun 2019 02:44:49: 1000000 INFO @ Mon, 03 Jun 2019 02:44:50: 1000000 INFO @ Mon, 03 Jun 2019 02:44:55: 2000000 INFO @ Mon, 03 Jun 2019 02:44:56: 2000000 INFO @ Mon, 03 Jun 2019 02:44:59: 2000000 INFO @ Mon, 03 Jun 2019 02:45:02: 3000000 INFO @ Mon, 03 Jun 2019 02:45:04: 3000000 INFO @ Mon, 03 Jun 2019 02:45:08: 3000000 INFO @ Mon, 03 Jun 2019 02:45:09: 4000000 INFO @ Mon, 03 Jun 2019 02:45:12: 4000000 INFO @ Mon, 03 Jun 2019 02:45:16: 5000000 INFO @ Mon, 03 Jun 2019 02:45:17: 4000000 INFO @ Mon, 03 Jun 2019 02:45:19: 5000000 INFO @ Mon, 03 Jun 2019 02:45:23: 6000000 INFO @ Mon, 03 Jun 2019 02:45:26: 5000000 INFO @ Mon, 03 Jun 2019 02:45:27: 6000000 INFO @ Mon, 03 Jun 2019 02:45:31: 7000000 INFO @ Mon, 03 Jun 2019 02:45:35: 7000000 INFO @ Mon, 03 Jun 2019 02:45:35: 6000000 INFO @ Mon, 03 Jun 2019 02:45:39: 8000000 INFO @ Mon, 03 Jun 2019 02:45:43: 8000000 INFO @ Mon, 03 Jun 2019 02:45:45: 7000000 INFO @ Mon, 03 Jun 2019 02:45:47: 9000000 INFO @ Mon, 03 Jun 2019 02:45:52: 9000000 INFO @ Mon, 03 Jun 2019 02:45:53: 8000000 INFO @ Mon, 03 Jun 2019 02:45:54: 10000000 INFO @ Mon, 03 Jun 2019 02:45:59: 10000000 INFO @ Mon, 03 Jun 2019 02:46:01: 11000000 INFO @ Mon, 03 Jun 2019 02:46:02: 9000000 INFO @ Mon, 03 Jun 2019 02:46:07: 11000000 INFO @ Mon, 03 Jun 2019 02:46:08: 12000000 INFO @ Mon, 03 Jun 2019 02:46:11: 10000000 INFO @ Mon, 03 Jun 2019 02:46:15: 12000000 INFO @ Mon, 03 Jun 2019 02:46:16: 13000000 INFO @ Mon, 03 Jun 2019 02:46:21: 11000000 INFO @ Mon, 03 Jun 2019 02:46:22: 13000000 INFO @ Mon, 03 Jun 2019 02:46:23: 14000000 INFO @ Mon, 03 Jun 2019 02:46:30: 12000000 INFO @ Mon, 03 Jun 2019 02:46:30: 15000000 INFO @ Mon, 03 Jun 2019 02:46:30: 14000000 INFO @ Mon, 03 Jun 2019 02:46:37: 16000000 INFO @ Mon, 03 Jun 2019 02:46:38: 15000000 INFO @ Mon, 03 Jun 2019 02:46:39: 13000000 INFO @ Mon, 03 Jun 2019 02:46:44: 17000000 INFO @ Mon, 03 Jun 2019 02:46:46: 16000000 INFO @ Mon, 03 Jun 2019 02:46:48: 14000000 INFO @ Mon, 03 Jun 2019 02:46:51: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 02:46:51: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 02:46:51: #1 total tags in treatment: 17994085 INFO @ Mon, 03 Jun 2019 02:46:51: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 02:46:51: #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 02:46:52: #1 tags after filtering in treatment: 17994085 INFO @ Mon, 03 Jun 2019 02:46:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 02:46:52: #1 finished! INFO @ Mon, 03 Jun 2019 02:46:52: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 02:46:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 02:46:53: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 02:46:53: 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 02:46:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.05_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/SRX113334/SRX113334.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 02:46:54: 17000000 INFO @ Mon, 03 Jun 2019 02:46:57: 15000000 INFO @ Mon, 03 Jun 2019 02:47:01: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 02:47:01: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 02:47:01: #1 total tags in treatment: 17994085 INFO @ Mon, 03 Jun 2019 02:47:01: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 02:47:01: #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 02:47:02: #1 tags after filtering in treatment: 17994085 INFO @ Mon, 03 Jun 2019 02:47:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 02:47:02: #1 finished! INFO @ Mon, 03 Jun 2019 02:47:02: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 02:47:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 02:47:03: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 02:47:03: 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 02:47:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.20_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/SRX113334/SRX113334.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 02:47:06: 16000000 INFO @ Mon, 03 Jun 2019 02:47:15: 17000000 INFO @ Mon, 03 Jun 2019 02:47:24: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 02:47:24: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 02:47:24: #1 total tags in treatment: 17994085 INFO @ Mon, 03 Jun 2019 02:47:24: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 02:47:24: #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 02:47:24: #1 tags after filtering in treatment: 17994085 INFO @ Mon, 03 Jun 2019 02:47:24: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 02:47:24: #1 finished! INFO @ Mon, 03 Jun 2019 02:47:24: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 02:47:24: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 02:47:26: #2 number of paired peaks: 0 WARNING @ Mon, 03 Jun 2019 02:47:26: 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 02:47:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.10_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/SRX113334/SRX113334.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113334/SRX113334.10_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。