Job ID = 4178530 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-12-05T03:49:00 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 : 29,934,211 reads read : 29,934,211 reads written : 29,934,211 rm: cannot remove ‘[DSE]RR*’: 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: 00:10:22 29934211 reads; of these: 29934211 (100.00%) were unpaired; of these: 3041263 (10.16%) aligned 0 times 20527262 (68.57%) aligned exactly 1 time 6365686 (21.27%) aligned >1 times 89.84% overall alignment rate Time searching: 00:10:23 Overall time: 00:10:23 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 12 files... [bam_rmdupse_core] 7765856 / 26892948 = 0.2888 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Thu, 05 Dec 2019 13:10:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.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 @ Thu, 05 Dec 2019 13:10:08: #1 read tag files... INFO @ Thu, 05 Dec 2019 13:10:08: #1 read treatment tags... INFO @ Thu, 05 Dec 2019 13:10:15: 1000000 INFO @ Thu, 05 Dec 2019 13:10:22: 2000000 INFO @ Thu, 05 Dec 2019 13:10:29: 3000000 INFO @ Thu, 05 Dec 2019 13:10:37: 4000000 INFO @ Thu, 05 Dec 2019 13:10:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.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 @ Thu, 05 Dec 2019 13:10:38: #1 read tag files... INFO @ Thu, 05 Dec 2019 13:10:38: #1 read treatment tags... INFO @ Thu, 05 Dec 2019 13:10:44: 5000000 INFO @ Thu, 05 Dec 2019 13:10:48: 1000000 INFO @ Thu, 05 Dec 2019 13:10:52: 6000000 INFO @ Thu, 05 Dec 2019 13:10:58: 2000000 INFO @ Thu, 05 Dec 2019 13:10:59: 7000000 BedGraph に変換中... INFO @ Thu, 05 Dec 2019 13:11:07: 8000000 INFO @ Thu, 05 Dec 2019 13:11:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.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 @ Thu, 05 Dec 2019 13:11:08: #1 read tag files... INFO @ Thu, 05 Dec 2019 13:11:08: #1 read treatment tags... INFO @ Thu, 05 Dec 2019 13:11:08: 3000000 INFO @ Thu, 05 Dec 2019 13:11:15: 9000000 INFO @ Thu, 05 Dec 2019 13:11:18: 1000000 INFO @ Thu, 05 Dec 2019 13:11:18: 4000000 INFO @ Thu, 05 Dec 2019 13:11:23: 10000000 INFO @ Thu, 05 Dec 2019 13:11:28: 2000000 INFO @ Thu, 05 Dec 2019 13:11:29: 5000000 INFO @ Thu, 05 Dec 2019 13:11:30: 11000000 INFO @ Thu, 05 Dec 2019 13:11:38: 12000000 INFO @ Thu, 05 Dec 2019 13:11:39: 6000000 INFO @ Thu, 05 Dec 2019 13:11:39: 3000000 INFO @ Thu, 05 Dec 2019 13:11:46: 13000000 INFO @ Thu, 05 Dec 2019 13:11:49: 7000000 INFO @ Thu, 05 Dec 2019 13:11:50: 4000000 INFO @ Thu, 05 Dec 2019 13:11:53: 14000000 INFO @ Thu, 05 Dec 2019 13:12:00: 8000000 INFO @ Thu, 05 Dec 2019 13:12:00: 5000000 INFO @ Thu, 05 Dec 2019 13:12:01: 15000000 INFO @ Thu, 05 Dec 2019 13:12:09: 16000000 INFO @ Thu, 05 Dec 2019 13:12:10: 9000000 INFO @ Thu, 05 Dec 2019 13:12:12: 6000000 INFO @ Thu, 05 Dec 2019 13:12:16: 17000000 INFO @ Thu, 05 Dec 2019 13:12:20: 10000000 INFO @ Thu, 05 Dec 2019 13:12:22: 7000000 INFO @ Thu, 05 Dec 2019 13:12:24: 18000000 INFO @ Thu, 05 Dec 2019 13:12:36: 19000000 INFO @ Thu, 05 Dec 2019 13:12:38: #1 tag size is determined as 50 bps INFO @ Thu, 05 Dec 2019 13:12:38: #1 tag size = 50 INFO @ Thu, 05 Dec 2019 13:12:38: #1 total tags in treatment: 19127092 INFO @ Thu, 05 Dec 2019 13:12:38: #1 user defined the maximum tags... INFO @ Thu, 05 Dec 2019 13:12:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Dec 2019 13:12:39: #1 tags after filtering in treatment: 19127092 INFO @ Thu, 05 Dec 2019 13:12:39: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Dec 2019 13:12:39: #1 finished! INFO @ Thu, 05 Dec 2019 13:12:39: #2 Build Peak Model... INFO @ Thu, 05 Dec 2019 13:12:39: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Dec 2019 13:12:41: #2 number of paired peaks: 21 WARNING @ Thu, 05 Dec 2019 13:12:41: Too few paired peaks (21) 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 @ Thu, 05 Dec 2019 13:12:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 05 Dec 2019 13:12:42: 11000000 INFO @ Thu, 05 Dec 2019 13:12:44: 8000000 INFO @ Thu, 05 Dec 2019 13:12:54: 12000000 INFO @ Thu, 05 Dec 2019 13:12:55: 9000000 INFO @ Thu, 05 Dec 2019 13:13:05: 13000000 INFO @ Thu, 05 Dec 2019 13:13:05: 10000000 INFO @ Thu, 05 Dec 2019 13:13:15: 14000000 INFO @ Thu, 05 Dec 2019 13:13:16: 11000000 INFO @ Thu, 05 Dec 2019 13:13:24: 15000000 INFO @ Thu, 05 Dec 2019 13:13:25: 12000000 INFO @ Thu, 05 Dec 2019 13:13:34: 16000000 INFO @ Thu, 05 Dec 2019 13:13:36: 13000000 INFO @ Thu, 05 Dec 2019 13:13:45: 17000000 INFO @ Thu, 05 Dec 2019 13:13:45: 14000000 INFO @ Thu, 05 Dec 2019 13:13:54: 18000000 INFO @ Thu, 05 Dec 2019 13:13:55: 15000000 INFO @ Thu, 05 Dec 2019 13:14:04: 19000000 INFO @ Thu, 05 Dec 2019 13:14:05: 16000000 INFO @ Thu, 05 Dec 2019 13:14:06: #1 tag size is determined as 50 bps INFO @ Thu, 05 Dec 2019 13:14:06: #1 tag size = 50 INFO @ Thu, 05 Dec 2019 13:14:06: #1 total tags in treatment: 19127092 INFO @ Thu, 05 Dec 2019 13:14:06: #1 user defined the maximum tags... INFO @ Thu, 05 Dec 2019 13:14:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Dec 2019 13:14:06: #1 tags after filtering in treatment: 19127092 INFO @ Thu, 05 Dec 2019 13:14:06: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Dec 2019 13:14:06: #1 finished! INFO @ Thu, 05 Dec 2019 13:14:06: #2 Build Peak Model... INFO @ Thu, 05 Dec 2019 13:14:06: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Dec 2019 13:14:08: #2 number of paired peaks: 21 WARNING @ Thu, 05 Dec 2019 13:14:08: Too few paired peaks (21) 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 @ Thu, 05 Dec 2019 13:14:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.10_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/SRX5717047/SRX5717047.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 05 Dec 2019 13:14:15: 17000000 INFO @ Thu, 05 Dec 2019 13:14:24: 18000000 INFO @ Thu, 05 Dec 2019 13:14:34: 19000000 INFO @ Thu, 05 Dec 2019 13:14:35: #1 tag size is determined as 50 bps INFO @ Thu, 05 Dec 2019 13:14:35: #1 tag size = 50 INFO @ Thu, 05 Dec 2019 13:14:35: #1 total tags in treatment: 19127092 INFO @ Thu, 05 Dec 2019 13:14:35: #1 user defined the maximum tags... INFO @ Thu, 05 Dec 2019 13:14:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Dec 2019 13:14:35: #1 tags after filtering in treatment: 19127092 INFO @ Thu, 05 Dec 2019 13:14:35: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 05 Dec 2019 13:14:35: #1 finished! INFO @ Thu, 05 Dec 2019 13:14:35: #2 Build Peak Model... INFO @ Thu, 05 Dec 2019 13:14:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Dec 2019 13:14:37: #2 number of paired peaks: 21 WARNING @ Thu, 05 Dec 2019 13:14:37: Too few paired peaks (21) 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 @ Thu, 05 Dec 2019 13:14:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.20_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/SRX5717047/SRX5717047.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5717047/SRX5717047.20_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。