Job ID = 2011063 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T17:00:35 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 : 29,675,431 reads read : 29,675,431 reads written : 29,675,431 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: 00:06:03 29675431 reads; of these: 29675431 (100.00%) were unpaired; of these: 1147746 (3.87%) aligned 0 times 19835899 (66.84%) aligned exactly 1 time 8691786 (29.29%) aligned >1 times 96.13% overall alignment rate Time searching: 00:06:03 Overall time: 00:06:03 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 12 files... [bam_rmdupse_core] 18908244 / 28527685 = 0.6628 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 02:18:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.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 02:18:04: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:18:04: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:18:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.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 02:18:05: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:18:05: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:18:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.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 02:18:06: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:18:06: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:18:15: 1000000 INFO @ Sat, 06 Jul 2019 02:18:15: 1000000 INFO @ Sat, 06 Jul 2019 02:18:16: 1000000 INFO @ Sat, 06 Jul 2019 02:18:23: 2000000 INFO @ Sat, 06 Jul 2019 02:18:25: 2000000 INFO @ Sat, 06 Jul 2019 02:18:26: 2000000 INFO @ Sat, 06 Jul 2019 02:18:32: 3000000 INFO @ Sat, 06 Jul 2019 02:18:35: 3000000 INFO @ Sat, 06 Jul 2019 02:18:35: 3000000 INFO @ Sat, 06 Jul 2019 02:18:40: 4000000 INFO @ Sat, 06 Jul 2019 02:18:46: 4000000 INFO @ Sat, 06 Jul 2019 02:18:46: 4000000 INFO @ Sat, 06 Jul 2019 02:18:48: 5000000 INFO @ Sat, 06 Jul 2019 02:18:55: 5000000 INFO @ Sat, 06 Jul 2019 02:18:55: 6000000 INFO @ Sat, 06 Jul 2019 02:18:58: 5000000 INFO @ Sat, 06 Jul 2019 02:19:03: 7000000 INFO @ Sat, 06 Jul 2019 02:19:04: 6000000 INFO @ Sat, 06 Jul 2019 02:19:08: 6000000 INFO @ Sat, 06 Jul 2019 02:19:12: 8000000 INFO @ Sat, 06 Jul 2019 02:19:13: 7000000 INFO @ Sat, 06 Jul 2019 02:19:17: 7000000 INFO @ Sat, 06 Jul 2019 02:19:22: 9000000 INFO @ Sat, 06 Jul 2019 02:19:22: 8000000 INFO @ Sat, 06 Jul 2019 02:19:27: 8000000 INFO @ Sat, 06 Jul 2019 02:19:28: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:19:28: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:19:28: #1 total tags in treatment: 9619441 INFO @ Sat, 06 Jul 2019 02:19:28: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:19:28: #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 02:19:28: #1 tags after filtering in treatment: 9619441 INFO @ Sat, 06 Jul 2019 02:19:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:19:28: #1 finished! INFO @ Sat, 06 Jul 2019 02:19:28: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:19:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:19:29: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:19:29: 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 02:19:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.10_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/SRX4553750/SRX4553750.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:19:31: 9000000 INFO @ Sat, 06 Jul 2019 02:19:35: 9000000 INFO @ Sat, 06 Jul 2019 02:19:37: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:19:37: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:19:37: #1 total tags in treatment: 9619441 INFO @ Sat, 06 Jul 2019 02:19:37: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:19:37: #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 02:19:37: #1 tags after filtering in treatment: 9619441 INFO @ Sat, 06 Jul 2019 02:19:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:19:37: #1 finished! INFO @ Sat, 06 Jul 2019 02:19:37: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:19:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:19:38: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:19:38: 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 02:19:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.05_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/SRX4553750/SRX4553750.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:19:40: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:19:40: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:19:40: #1 total tags in treatment: 9619441 INFO @ Sat, 06 Jul 2019 02:19:40: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:19:40: #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 02:19:40: #1 tags after filtering in treatment: 9619441 INFO @ Sat, 06 Jul 2019 02:19:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:19:40: #1 finished! INFO @ Sat, 06 Jul 2019 02:19:40: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:19:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:19:41: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:19:41: 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 02:19:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.20_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/SRX4553750/SRX4553750.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4553750/SRX4553750.20_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。