Job ID = 1304312 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-06-03T11:47:35 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 ) 2019-06-03T11:47:35 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 ) 2019-06-03T11:47:35 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 : 17,982,328 reads read : 17,982,328 reads written : 17,982,328 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: 00:04:33 17982328 reads; of these: 17982328 (100.00%) were unpaired; of these: 942271 (5.24%) aligned 0 times 13742997 (76.43%) aligned exactly 1 time 3297060 (18.34%) aligned >1 times 94.76% overall alignment rate Time searching: 00:04:33 Overall time: 00:04:33 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] 3192230 / 17040057 = 0.1873 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 21:01:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.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 21:01:59: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:01:59: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:01:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.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 21:01:59: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:01:59: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:01:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.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 21:01:59: #1 read tag files... INFO @ Mon, 03 Jun 2019 21:01:59: #1 read treatment tags... INFO @ Mon, 03 Jun 2019 21:02:08: 1000000 INFO @ Mon, 03 Jun 2019 21:02:08: 1000000 INFO @ Mon, 03 Jun 2019 21:02:10: 1000000 INFO @ Mon, 03 Jun 2019 21:02:16: 2000000 INFO @ Mon, 03 Jun 2019 21:02:17: 2000000 INFO @ Mon, 03 Jun 2019 21:02:20: 2000000 INFO @ Mon, 03 Jun 2019 21:02:25: 3000000 INFO @ Mon, 03 Jun 2019 21:02:25: 3000000 INFO @ Mon, 03 Jun 2019 21:02:29: 3000000 INFO @ Mon, 03 Jun 2019 21:02:33: 4000000 INFO @ Mon, 03 Jun 2019 21:02:34: 4000000 INFO @ Mon, 03 Jun 2019 21:02:39: 4000000 INFO @ Mon, 03 Jun 2019 21:02:42: 5000000 INFO @ Mon, 03 Jun 2019 21:02:42: 5000000 INFO @ Mon, 03 Jun 2019 21:02:49: 5000000 INFO @ Mon, 03 Jun 2019 21:02:50: 6000000 INFO @ Mon, 03 Jun 2019 21:02:50: 6000000 INFO @ Mon, 03 Jun 2019 21:02:58: 7000000 INFO @ Mon, 03 Jun 2019 21:02:59: 6000000 INFO @ Mon, 03 Jun 2019 21:02:59: 7000000 INFO @ Mon, 03 Jun 2019 21:03:06: 8000000 INFO @ Mon, 03 Jun 2019 21:03:09: 8000000 INFO @ Mon, 03 Jun 2019 21:03:09: 7000000 INFO @ Mon, 03 Jun 2019 21:03:14: 9000000 INFO @ Mon, 03 Jun 2019 21:03:17: 9000000 INFO @ Mon, 03 Jun 2019 21:03:19: 8000000 INFO @ Mon, 03 Jun 2019 21:03:22: 10000000 INFO @ Mon, 03 Jun 2019 21:03:26: 10000000 INFO @ Mon, 03 Jun 2019 21:03:29: 9000000 INFO @ Mon, 03 Jun 2019 21:03:30: 11000000 INFO @ Mon, 03 Jun 2019 21:03:33: 11000000 INFO @ Mon, 03 Jun 2019 21:03:37: 12000000 INFO @ Mon, 03 Jun 2019 21:03:38: 10000000 INFO @ Mon, 03 Jun 2019 21:03:41: 12000000 INFO @ Mon, 03 Jun 2019 21:03:45: 13000000 INFO @ Mon, 03 Jun 2019 21:03:48: 11000000 INFO @ Mon, 03 Jun 2019 21:03:50: 13000000 INFO @ Mon, 03 Jun 2019 21:03:52: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 21:03:52: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 21:03:52: #1 total tags in treatment: 13847827 INFO @ Mon, 03 Jun 2019 21:03:52: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:03:52: #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 21:03:52: #1 tags after filtering in treatment: 13847827 INFO @ Mon, 03 Jun 2019 21:03:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:03:52: #1 finished! INFO @ Mon, 03 Jun 2019 21:03:52: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:03:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:03:53: #2 number of paired peaks: 50 WARNING @ Mon, 03 Jun 2019 21:03:53: Too few paired peaks (50) 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 21:03:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.10_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/SRX495183/SRX495183.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 21:03:57: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 21:03:57: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 21:03:57: #1 total tags in treatment: 13847827 INFO @ Mon, 03 Jun 2019 21:03:57: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:03:57: #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 21:03:57: #1 tags after filtering in treatment: 13847827 INFO @ Mon, 03 Jun 2019 21:03:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:03:57: #1 finished! INFO @ Mon, 03 Jun 2019 21:03:57: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:03:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:03:58: 12000000 INFO @ Mon, 03 Jun 2019 21:03:58: #2 number of paired peaks: 50 WARNING @ Mon, 03 Jun 2019 21:03:58: Too few paired peaks (50) 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 21:03:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.05_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/SRX495183/SRX495183.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 03 Jun 2019 21:04:07: 13000000 INFO @ Mon, 03 Jun 2019 21:04:15: #1 tag size is determined as 44 bps INFO @ Mon, 03 Jun 2019 21:04:15: #1 tag size = 44 INFO @ Mon, 03 Jun 2019 21:04:15: #1 total tags in treatment: 13847827 INFO @ Mon, 03 Jun 2019 21:04:15: #1 user defined the maximum tags... INFO @ Mon, 03 Jun 2019 21:04:15: #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 21:04:15: #1 tags after filtering in treatment: 13847827 INFO @ Mon, 03 Jun 2019 21:04:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 03 Jun 2019 21:04:15: #1 finished! INFO @ Mon, 03 Jun 2019 21:04:15: #2 Build Peak Model... INFO @ Mon, 03 Jun 2019 21:04:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 03 Jun 2019 21:04:16: #2 number of paired peaks: 50 WARNING @ Mon, 03 Jun 2019 21:04:16: Too few paired peaks (50) 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 21:04:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.20_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/SRX495183/SRX495183.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX495183/SRX495183.20_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。