Job ID = 2010620 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T14:37:34 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 ) 2019-07-05T14:37:34 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 : 12,072,284 reads read : 24,144,568 reads written : 12,072,284 reads 0-length : 12,072,284 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: 00:02:07 12072284 reads; of these: 12072284 (100.00%) were unpaired; of these: 1198406 (9.93%) aligned 0 times 9119357 (75.54%) aligned exactly 1 time 1754521 (14.53%) aligned >1 times 90.07% overall alignment rate Time searching: 00:02:07 Overall time: 00:02:07 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] 3320107 / 10873878 = 0.3053 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 23:46:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.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 23:46:15: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:46:15: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:46:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.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 23:46:16: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:46:16: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:46:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.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 23:46:17: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:46:17: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:46:23: 1000000 INFO @ Fri, 05 Jul 2019 23:46:23: 1000000 INFO @ Fri, 05 Jul 2019 23:46:23: 1000000 INFO @ Fri, 05 Jul 2019 23:46:30: 2000000 INFO @ Fri, 05 Jul 2019 23:46:30: 2000000 INFO @ Fri, 05 Jul 2019 23:46:31: 2000000 INFO @ Fri, 05 Jul 2019 23:46:37: 3000000 INFO @ Fri, 05 Jul 2019 23:46:38: 3000000 INFO @ Fri, 05 Jul 2019 23:46:38: 3000000 INFO @ Fri, 05 Jul 2019 23:46:43: 4000000 INFO @ Fri, 05 Jul 2019 23:46:45: 4000000 INFO @ Fri, 05 Jul 2019 23:46:45: 4000000 INFO @ Fri, 05 Jul 2019 23:46:50: 5000000 INFO @ Fri, 05 Jul 2019 23:46:52: 5000000 INFO @ Fri, 05 Jul 2019 23:46:52: 5000000 INFO @ Fri, 05 Jul 2019 23:46:56: 6000000 INFO @ Fri, 05 Jul 2019 23:46:59: 6000000 INFO @ Fri, 05 Jul 2019 23:46:59: 6000000 INFO @ Fri, 05 Jul 2019 23:47:03: 7000000 INFO @ Fri, 05 Jul 2019 23:47:06: 7000000 INFO @ Fri, 05 Jul 2019 23:47:06: 7000000 INFO @ Fri, 05 Jul 2019 23:47:06: #1 tag size is determined as 38 bps INFO @ Fri, 05 Jul 2019 23:47:06: #1 tag size = 38 INFO @ Fri, 05 Jul 2019 23:47:06: #1 total tags in treatment: 7553771 INFO @ Fri, 05 Jul 2019 23:47:06: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:47:06: #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 23:47:06: #1 tags after filtering in treatment: 7553771 INFO @ Fri, 05 Jul 2019 23:47:06: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 23:47:06: #1 finished! INFO @ Fri, 05 Jul 2019 23:47:06: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:47:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:47:07: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:47:07: 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 23:47:07: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 23:47:10: #1 tag size is determined as 38 bps INFO @ Fri, 05 Jul 2019 23:47:10: #1 tag size = 38 INFO @ Fri, 05 Jul 2019 23:47:10: #1 total tags in treatment: 7553771 INFO @ Fri, 05 Jul 2019 23:47:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:47:10: #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 23:47:10: #1 tag size is determined as 38 bps INFO @ Fri, 05 Jul 2019 23:47:10: #1 tag size = 38 INFO @ Fri, 05 Jul 2019 23:47:10: #1 total tags in treatment: 7553771 INFO @ Fri, 05 Jul 2019 23:47:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:47:10: #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 23:47:10: #1 tags after filtering in treatment: 7553771 INFO @ Fri, 05 Jul 2019 23:47:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 23:47:10: #1 finished! INFO @ Fri, 05 Jul 2019 23:47:10: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:47:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:47:10: #1 tags after filtering in treatment: 7553771 INFO @ Fri, 05 Jul 2019 23:47:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 23:47:10: #1 finished! INFO @ Fri, 05 Jul 2019 23:47:10: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:47:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:47:10: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:47:10: 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 23:47:10: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 23:47:11: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 23:47:11: 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 23:47:11: Process for pairing-model is terminated! BedGraph に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.20_peaks.narrowPeak: No such file or directory BigWig に変換中... cut: /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.10_peaks.narrowPeakcut: /home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.05_peaks.narrowPeak: No such file or directory : No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.20_peaks.narrowPeak’: No such file or directory pass1 - making usageList (0 chroms): 2 millis CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823270/SRX3823270.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。