Job ID = 4289137 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-12-10T04:40:25 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 : 22,197,457 reads read : 44,394,914 reads written : 22,197,457 reads 0-length : 22,197,457 spots read : 26,984,279 reads read : 53,968,558 reads written : 26,984,279 reads 0-length : 26,984,279 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: 00:06:26 49181736 reads; of these: 49181736 (100.00%) were unpaired; of these: 31607532 (64.27%) aligned 0 times 11976607 (24.35%) aligned exactly 1 time 5597597 (11.38%) aligned >1 times 35.73% overall alignment rate Time searching: 00:06:26 Overall time: 00:06:26 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] 8923526 / 17574204 = 0.5078 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:03:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.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 @ Tue, 10 Dec 2019 14:03:01: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:03:01: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:03:08: 1000000 INFO @ Tue, 10 Dec 2019 14:03:16: 2000000 INFO @ Tue, 10 Dec 2019 14:03:23: 3000000 INFO @ Tue, 10 Dec 2019 14:03:30: 4000000 INFO @ Tue, 10 Dec 2019 14:03:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.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 @ Tue, 10 Dec 2019 14:03:31: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:03:31: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:03:37: 5000000 INFO @ Tue, 10 Dec 2019 14:03:38: 1000000 INFO @ Tue, 10 Dec 2019 14:03:44: 6000000 INFO @ Tue, 10 Dec 2019 14:03:46: 2000000 INFO @ Tue, 10 Dec 2019 14:03:51: 7000000 INFO @ Tue, 10 Dec 2019 14:03:53: 3000000 INFO @ Tue, 10 Dec 2019 14:03:58: 8000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:04:00: 4000000 INFO @ Tue, 10 Dec 2019 14:04:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.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 @ Tue, 10 Dec 2019 14:04:01: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:04:01: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:04:03: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 14:04:03: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 14:04:03: #1 total tags in treatment: 8650678 INFO @ Tue, 10 Dec 2019 14:04:03: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:04:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:04:03: #1 tags after filtering in treatment: 8650678 INFO @ Tue, 10 Dec 2019 14:04:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:04:03: #1 finished! INFO @ Tue, 10 Dec 2019 14:04:03: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:04:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:04:03: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:04:03: 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 @ Tue, 10 Dec 2019 14:04:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.05_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/SRX5486257/SRX5486257.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:04:07: 5000000 INFO @ Tue, 10 Dec 2019 14:04:08: 1000000 INFO @ Tue, 10 Dec 2019 14:04:14: 6000000 INFO @ Tue, 10 Dec 2019 14:04:16: 2000000 INFO @ Tue, 10 Dec 2019 14:04:21: 7000000 INFO @ Tue, 10 Dec 2019 14:04:23: 3000000 INFO @ Tue, 10 Dec 2019 14:04:28: 8000000 INFO @ Tue, 10 Dec 2019 14:04:30: 4000000 INFO @ Tue, 10 Dec 2019 14:04:33: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 14:04:33: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 14:04:33: #1 total tags in treatment: 8650678 INFO @ Tue, 10 Dec 2019 14:04:33: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:04:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:04:33: #1 tags after filtering in treatment: 8650678 INFO @ Tue, 10 Dec 2019 14:04:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:04:33: #1 finished! INFO @ Tue, 10 Dec 2019 14:04:33: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:04:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:04:34: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:04:34: 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 @ Tue, 10 Dec 2019 14:04:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.10_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/SRX5486257/SRX5486257.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:04:37: 5000000 INFO @ Tue, 10 Dec 2019 14:04:44: 6000000 INFO @ Tue, 10 Dec 2019 14:04:51: 7000000 INFO @ Tue, 10 Dec 2019 14:04:58: 8000000 INFO @ Tue, 10 Dec 2019 14:05:02: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 14:05:02: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 14:05:02: #1 total tags in treatment: 8650678 INFO @ Tue, 10 Dec 2019 14:05:02: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:05:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:05:03: #1 tags after filtering in treatment: 8650678 INFO @ Tue, 10 Dec 2019 14:05:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:05:03: #1 finished! INFO @ Tue, 10 Dec 2019 14:05:03: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:05:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:05:03: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:05:03: 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 @ Tue, 10 Dec 2019 14:05:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.20_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/SRX5486257/SRX5486257.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5486257/SRX5486257.20_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。