Job ID = 2010204 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T12:43:04 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 : 15,012,861 reads read : 30,025,722 reads written : 15,012,861 reads 0-length : 15,012,861 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: 00:03:02 15012861 reads; of these: 15012861 (100.00%) were unpaired; of these: 1089530 (7.26%) aligned 0 times 12191208 (81.21%) aligned exactly 1 time 1732123 (11.54%) aligned >1 times 92.74% overall alignment rate Time searching: 00:03:02 Overall time: 00:03:02 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 8 files... [bam_rmdupse_core] 5023341 / 13923331 = 0.3608 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 @ Fri, 05 Jul 2019 21:57:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.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 @ Fri, 05 Jul 2019 21:57:54: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:57:54: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:57:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.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 @ Fri, 05 Jul 2019 21:57:55: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:57:55: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:57:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.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 @ Fri, 05 Jul 2019 21:57:56: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:57:56: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:58:02: 1000000 INFO @ Fri, 05 Jul 2019 21:58:05: 1000000 INFO @ Fri, 05 Jul 2019 21:58:06: 1000000 INFO @ Fri, 05 Jul 2019 21:58:11: 2000000 INFO @ Fri, 05 Jul 2019 21:58:13: 2000000 INFO @ Fri, 05 Jul 2019 21:58:15: 2000000 INFO @ Fri, 05 Jul 2019 21:58:19: 3000000 INFO @ Fri, 05 Jul 2019 21:58:22: 3000000 INFO @ Fri, 05 Jul 2019 21:58:25: 3000000 INFO @ Fri, 05 Jul 2019 21:58:27: 4000000 INFO @ Fri, 05 Jul 2019 21:58:30: 4000000 INFO @ Fri, 05 Jul 2019 21:58:34: 4000000 INFO @ Fri, 05 Jul 2019 21:58:35: 5000000 INFO @ Fri, 05 Jul 2019 21:58:38: 5000000 INFO @ Fri, 05 Jul 2019 21:58:44: 5000000 INFO @ Fri, 05 Jul 2019 21:58:44: 6000000 INFO @ Fri, 05 Jul 2019 21:58:47: 6000000 INFO @ Fri, 05 Jul 2019 21:58:53: 7000000 INFO @ Fri, 05 Jul 2019 21:58:54: 6000000 INFO @ Fri, 05 Jul 2019 21:58:56: 7000000 INFO @ Fri, 05 Jul 2019 21:59:01: 8000000 INFO @ Fri, 05 Jul 2019 21:59:04: 8000000 INFO @ Fri, 05 Jul 2019 21:59:04: 7000000 INFO @ Fri, 05 Jul 2019 21:59:09: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:59:09: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:59:09: #1 total tags in treatment: 8899990 INFO @ Fri, 05 Jul 2019 21:59:09: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:59:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:59:09: #1 tags after filtering in treatment: 8899990 INFO @ Fri, 05 Jul 2019 21:59:09: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:59:09: #1 finished! INFO @ Fri, 05 Jul 2019 21:59:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:59:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:59:10: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:59:10: 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 @ Fri, 05 Jul 2019 21:59:10: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 21:59:12: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:59:12: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:59:12: #1 total tags in treatment: 8899990 INFO @ Fri, 05 Jul 2019 21:59:12: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:59:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:59:12: #1 tags after filtering in treatment: 8899990 INFO @ Fri, 05 Jul 2019 21:59:12: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:59:12: #1 finished! INFO @ Fri, 05 Jul 2019 21:59:12: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:59:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:59:13: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:59:13: 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 @ Fri, 05 Jul 2019 21:59:13: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 21:59:14: 8000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.05_model.r’: No such file or directory rm: rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.20_model.r’cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.05_*.xls’: No such file or directory: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:59:23: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 21:59:23: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 21:59:23: #1 total tags in treatment: 8899990 INFO @ Fri, 05 Jul 2019 21:59:23: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:59:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 21:59:23: #1 tags after filtering in treatment: 8899990 INFO @ Fri, 05 Jul 2019 21:59:23: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:59:23: #1 finished! INFO @ Fri, 05 Jul 2019 21:59:23: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:59:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:59:24: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:59:24: 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 @ Fri, 05 Jul 2019 21:59:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.10_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/SRX3294576/SRX3294576.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294576/SRX3294576.10_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。