Job ID = 2010792 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T15:43:37 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 ) 2019-07-05T15:43:37 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 ) 2019-07-05T16:00:52 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 43,470,900 reads read : 86,941,800 reads written : 43,470,900 reads 0-length : 43,470,900 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:18 43470900 reads; of these: 43470900 (100.00%) were unpaired; of these: 5019937 (11.55%) aligned 0 times 32814417 (75.49%) aligned exactly 1 time 5636546 (12.97%) aligned >1 times 88.45% overall alignment rate Time searching: 00:14:18 Overall time: 00:14:18 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 24537977 / 38450963 = 0.6382 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 @ Sat, 06 Jul 2019 01:43:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 06 Jul 2019 01:43:36: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:43:36: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:43:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 06 Jul 2019 01:43:37: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:43:37: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:43:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 06 Jul 2019 01:43:38: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:43:38: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:43:47: 1000000 INFO @ Sat, 06 Jul 2019 01:43:49: 1000000 INFO @ Sat, 06 Jul 2019 01:43:52: 1000000 INFO @ Sat, 06 Jul 2019 01:43:57: 2000000 INFO @ Sat, 06 Jul 2019 01:44:00: 2000000 INFO @ Sat, 06 Jul 2019 01:44:05: 2000000 INFO @ Sat, 06 Jul 2019 01:44:08: 3000000 INFO @ Sat, 06 Jul 2019 01:44:11: 3000000 INFO @ Sat, 06 Jul 2019 01:44:17: 3000000 INFO @ Sat, 06 Jul 2019 01:44:18: 4000000 INFO @ Sat, 06 Jul 2019 01:44:22: 4000000 INFO @ Sat, 06 Jul 2019 01:44:28: 5000000 INFO @ Sat, 06 Jul 2019 01:44:29: 4000000 INFO @ Sat, 06 Jul 2019 01:44:33: 5000000 INFO @ Sat, 06 Jul 2019 01:44:38: 6000000 INFO @ Sat, 06 Jul 2019 01:44:40: 5000000 INFO @ Sat, 06 Jul 2019 01:44:44: 6000000 INFO @ Sat, 06 Jul 2019 01:44:48: 7000000 INFO @ Sat, 06 Jul 2019 01:44:51: 6000000 INFO @ Sat, 06 Jul 2019 01:44:55: 7000000 INFO @ Sat, 06 Jul 2019 01:44:58: 8000000 INFO @ Sat, 06 Jul 2019 01:45:02: 7000000 INFO @ Sat, 06 Jul 2019 01:45:06: 8000000 INFO @ Sat, 06 Jul 2019 01:45:08: 9000000 INFO @ Sat, 06 Jul 2019 01:45:13: 8000000 INFO @ Sat, 06 Jul 2019 01:45:17: 9000000 INFO @ Sat, 06 Jul 2019 01:45:18: 10000000 INFO @ Sat, 06 Jul 2019 01:45:24: 9000000 INFO @ Sat, 06 Jul 2019 01:45:27: 11000000 INFO @ Sat, 06 Jul 2019 01:45:28: 10000000 INFO @ Sat, 06 Jul 2019 01:45:35: 10000000 INFO @ Sat, 06 Jul 2019 01:45:37: 12000000 INFO @ Sat, 06 Jul 2019 01:45:39: 11000000 INFO @ Sat, 06 Jul 2019 01:45:46: 11000000 INFO @ Sat, 06 Jul 2019 01:45:47: 13000000 INFO @ Sat, 06 Jul 2019 01:45:50: 12000000 INFO @ Sat, 06 Jul 2019 01:45:56: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:45:56: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:45:56: #1 total tags in treatment: 13912986 INFO @ Sat, 06 Jul 2019 01:45:56: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:45:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:45:57: #1 tags after filtering in treatment: 13912986 INFO @ Sat, 06 Jul 2019 01:45:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:45:57: #1 finished! INFO @ Sat, 06 Jul 2019 01:45:57: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:45:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:45:57: 12000000 INFO @ Sat, 06 Jul 2019 01:45:58: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:45:58: 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 @ Sat, 06 Jul 2019 01:45:58: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 01:46:01: 13000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.05_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/sacCer3/SRX4140903/SRX4140903.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:46:08: 13000000 INFO @ Sat, 06 Jul 2019 01:46:11: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:46:11: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:46:11: #1 total tags in treatment: 13912986 INFO @ Sat, 06 Jul 2019 01:46:11: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:46:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:46:11: #1 tags after filtering in treatment: 13912986 INFO @ Sat, 06 Jul 2019 01:46:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:46:11: #1 finished! INFO @ Sat, 06 Jul 2019 01:46:11: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:46:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:46:12: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:46:12: 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 @ Sat, 06 Jul 2019 01:46:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.10_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/sacCer3/SRX4140903/SRX4140903.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:46:18: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:46:18: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:46:18: #1 total tags in treatment: 13912986 INFO @ Sat, 06 Jul 2019 01:46:18: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:46:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:46:18: #1 tags after filtering in treatment: 13912986 INFO @ Sat, 06 Jul 2019 01:46:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:46:18: #1 finished! INFO @ Sat, 06 Jul 2019 01:46:18: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:46:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:46:19: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:46:19: 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 @ Sat, 06 Jul 2019 01:46:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.20_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/sacCer3/SRX4140903/SRX4140903.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140903/SRX4140903.20_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。