Job ID = 2011726 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T17:17:01 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 ) 2019-07-05T17:17:01 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 ) 2019-07-05T17:17:05 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 : 32,741,704 reads read : 32,741,704 reads written : 32,741,704 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: 00:05:55 32741704 reads; of these: 32741704 (100.00%) were unpaired; of these: 1436240 (4.39%) aligned 0 times 25569858 (78.10%) aligned exactly 1 time 5735606 (17.52%) aligned >1 times 95.61% overall alignment rate Time searching: 00:05:55 Overall time: 00:05:55 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] 15928343 / 31305464 = 0.5088 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 02:39:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.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 02:39:47: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:39:47: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:39:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.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 02:39:48: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:39:48: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:39:54: 1000000 INFO @ Sat, 06 Jul 2019 02:39:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.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 02:39:55: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:39:55: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:39:55: 1000000 INFO @ Sat, 06 Jul 2019 02:40:02: 2000000 INFO @ Sat, 06 Jul 2019 02:40:03: 2000000 INFO @ Sat, 06 Jul 2019 02:40:05: 1000000 INFO @ Sat, 06 Jul 2019 02:40:09: 3000000 INFO @ Sat, 06 Jul 2019 02:40:10: 3000000 INFO @ Sat, 06 Jul 2019 02:40:15: 2000000 INFO @ Sat, 06 Jul 2019 02:40:16: 4000000 INFO @ Sat, 06 Jul 2019 02:40:17: 4000000 INFO @ Sat, 06 Jul 2019 02:40:23: 5000000 INFO @ Sat, 06 Jul 2019 02:40:24: 3000000 INFO @ Sat, 06 Jul 2019 02:40:24: 5000000 INFO @ Sat, 06 Jul 2019 02:40:32: 6000000 INFO @ Sat, 06 Jul 2019 02:40:33: 6000000 INFO @ Sat, 06 Jul 2019 02:40:35: 4000000 INFO @ Sat, 06 Jul 2019 02:40:40: 7000000 INFO @ Sat, 06 Jul 2019 02:40:41: 7000000 INFO @ Sat, 06 Jul 2019 02:40:46: 5000000 INFO @ Sat, 06 Jul 2019 02:40:47: 8000000 INFO @ Sat, 06 Jul 2019 02:40:52: 8000000 INFO @ Sat, 06 Jul 2019 02:40:54: 9000000 INFO @ Sat, 06 Jul 2019 02:40:57: 6000000 INFO @ Sat, 06 Jul 2019 02:41:01: 10000000 INFO @ Sat, 06 Jul 2019 02:41:02: 9000000 INFO @ Sat, 06 Jul 2019 02:41:06: 7000000 INFO @ Sat, 06 Jul 2019 02:41:08: 11000000 INFO @ Sat, 06 Jul 2019 02:41:12: 10000000 INFO @ Sat, 06 Jul 2019 02:41:15: 8000000 INFO @ Sat, 06 Jul 2019 02:41:16: 12000000 INFO @ Sat, 06 Jul 2019 02:41:22: 11000000 INFO @ Sat, 06 Jul 2019 02:41:24: 13000000 INFO @ Sat, 06 Jul 2019 02:41:25: 9000000 INFO @ Sat, 06 Jul 2019 02:41:31: 12000000 INFO @ Sat, 06 Jul 2019 02:41:32: 14000000 INFO @ Sat, 06 Jul 2019 02:41:35: 10000000 INFO @ Sat, 06 Jul 2019 02:41:39: 15000000 INFO @ Sat, 06 Jul 2019 02:41:40: 13000000 INFO @ Sat, 06 Jul 2019 02:41:41: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:41:41: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:41:41: #1 total tags in treatment: 15377121 INFO @ Sat, 06 Jul 2019 02:41:41: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:41:41: #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 02:41:42: #1 tags after filtering in treatment: 15377121 INFO @ Sat, 06 Jul 2019 02:41:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:41:42: #1 finished! INFO @ Sat, 06 Jul 2019 02:41:42: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:41:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:41:43: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:41:43: 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 02:41:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.05_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/SRX4726625/SRX4726625.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:41:44: 11000000 INFO @ Sat, 06 Jul 2019 02:41:49: 14000000 INFO @ Sat, 06 Jul 2019 02:41:54: 12000000 INFO @ Sat, 06 Jul 2019 02:41:58: 15000000 INFO @ Sat, 06 Jul 2019 02:42:02: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:42:02: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:42:02: #1 total tags in treatment: 15377121 INFO @ Sat, 06 Jul 2019 02:42:02: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:42:02: #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 02:42:02: #1 tags after filtering in treatment: 15377121 INFO @ Sat, 06 Jul 2019 02:42:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:42:02: #1 finished! INFO @ Sat, 06 Jul 2019 02:42:02: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:42:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:42:03: 13000000 INFO @ Sat, 06 Jul 2019 02:42:03: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:42:03: 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 @ Sat, 06 Jul 2019 02:42:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.10_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/sacCer3/SRX4726625/SRX4726625.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:42:11: 14000000 INFO @ Sat, 06 Jul 2019 02:42:20: 15000000 INFO @ Sat, 06 Jul 2019 02:42:23: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:42:23: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:42:23: #1 total tags in treatment: 15377121 INFO @ Sat, 06 Jul 2019 02:42:23: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:42:23: #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 02:42:23: #1 tags after filtering in treatment: 15377121 INFO @ Sat, 06 Jul 2019 02:42:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:42:23: #1 finished! INFO @ Sat, 06 Jul 2019 02:42:23: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:42:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:42:24: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:42:24: 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 02:42:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.20_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/SRX4726625/SRX4726625.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4726625/SRX4726625.20_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。