Job ID = 2010222 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T12:48:49 fasterq-dump.2.9.6 sys: connection busy while validating within network system module - Failed to Make Connection in KClientHttpOpen to 'sra-download.ncbi.nlm.nih.gov:443' 2019-07-05T12:48:49 fasterq-dump.2.9.6 err: connection busy while validating within network system module - error with https open 'https://sra-download.ncbi.nlm.nih.gov/traces/sra53/SRR/006039/SRR6184444' 2019-07-05T12:48:49 fasterq-dump.2.9.6 err: invalid accession 'SRR6184444' 2019-07-05T12:49:04 fasterq-dump.2.9.6 sys: connection busy while validating within network system module - Failed to Make Connection in KClientHttpOpen to 'sra-download.ncbi.nlm.nih.gov:443' 2019-07-05T12:49:04 fasterq-dump.2.9.6 err: connection busy while validating within network system module - error with https open 'https://sra-download.ncbi.nlm.nih.gov/traces/sra53/SRR/006039/SRR6184444' 2019-07-05T12:49:04 fasterq-dump.2.9.6 err: invalid accession 'SRR6184444' spots read : 10,532,787 reads read : 21,065,574 reads written : 10,532,787 reads 0-length : 10,532,787 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: 00:01:59 10532787 reads; of these: 10532787 (100.00%) were unpaired; of these: 807828 (7.67%) aligned 0 times 8613000 (81.77%) aligned exactly 1 time 1111959 (10.56%) aligned >1 times 92.33% overall alignment rate Time searching: 00:01:59 Overall time: 00:01:59 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_rmdupse_core] 2675845 / 9724959 = 0.2752 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 21:59:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.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 21:59:43: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:59:43: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:59:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.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 21:59:45: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:59:45: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:59:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.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 21:59:45: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:59:45: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:59:52: 1000000 INFO @ Fri, 05 Jul 2019 21:59:53: 1000000 INFO @ Fri, 05 Jul 2019 21:59:53: 1000000 INFO @ Fri, 05 Jul 2019 22:00:00: 2000000 INFO @ Fri, 05 Jul 2019 22:00:01: 2000000 INFO @ Fri, 05 Jul 2019 22:00:02: 2000000 INFO @ Fri, 05 Jul 2019 22:00:07: 3000000 INFO @ Fri, 05 Jul 2019 22:00:08: 3000000 INFO @ Fri, 05 Jul 2019 22:00:11: 3000000 INFO @ Fri, 05 Jul 2019 22:00:14: 4000000 INFO @ Fri, 05 Jul 2019 22:00:15: 4000000 INFO @ Fri, 05 Jul 2019 22:00:19: 4000000 INFO @ Fri, 05 Jul 2019 22:00:20: 5000000 INFO @ Fri, 05 Jul 2019 22:00:22: 5000000 INFO @ Fri, 05 Jul 2019 22:00:27: 6000000 INFO @ Fri, 05 Jul 2019 22:00:28: 5000000 INFO @ Fri, 05 Jul 2019 22:00:29: 6000000 INFO @ Fri, 05 Jul 2019 22:00:34: 7000000 INFO @ Fri, 05 Jul 2019 22:00:34: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 22:00:34: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 22:00:34: #1 total tags in treatment: 7049114 INFO @ Fri, 05 Jul 2019 22:00:34: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:00:34: #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 22:00:34: #1 tags after filtering in treatment: 7049114 INFO @ Fri, 05 Jul 2019 22:00:34: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:00:34: #1 finished! INFO @ Fri, 05 Jul 2019 22:00:34: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:00:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:00:35: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:00:35: 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 22:00:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.20_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/SRX3294592/SRX3294592.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:00:36: 6000000 INFO @ Fri, 05 Jul 2019 22:00:37: 7000000 INFO @ Fri, 05 Jul 2019 22:00:37: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 22:00:37: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 22:00:37: #1 total tags in treatment: 7049114 INFO @ Fri, 05 Jul 2019 22:00:37: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:00:37: #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 22:00:37: #1 tags after filtering in treatment: 7049114 INFO @ Fri, 05 Jul 2019 22:00:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:00:37: #1 finished! INFO @ Fri, 05 Jul 2019 22:00:37: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:00:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:00:38: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:00:38: 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 @ Fri, 05 Jul 2019 22:00:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.10_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/SRX3294592/SRX3294592.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:00:44: 7000000 INFO @ Fri, 05 Jul 2019 22:00:45: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 22:00:45: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 22:00:45: #1 total tags in treatment: 7049114 INFO @ Fri, 05 Jul 2019 22:00:45: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:00:45: #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 22:00:45: #1 tags after filtering in treatment: 7049114 INFO @ Fri, 05 Jul 2019 22:00:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:00:45: #1 finished! INFO @ Fri, 05 Jul 2019 22:00:45: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:00:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:00:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:00:45: 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 22:00:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.05_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/SRX3294592/SRX3294592.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294592/SRX3294592.05_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。