Job ID = 2010825 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T15:52:05 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' 2019-07-05T15:52:05 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/sra64/SRR/007064/SRR7234525' 2019-07-05T15:52:05 fasterq-dump.2.9.6 err: cmn_iter.c cmn_get_acc_type( 'SRR7234525', 'SEQUENCE', 'NAME' ).VDBManagerOpenDBRead() -> RC(rcNS,rcNoTarg,rcValidating,rcConnection,rcBusy) 2019-07-05T15:52:09 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' 2019-07-05T15:52:09 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/sra64/SRR/007064/SRR7234525' 2019-07-05T15:52:09 fasterq-dump.2.9.6 err: invalid accession 'SRR7234525' 2019-07-05T15:52:27 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' 2019-07-05T15:52:27 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/sra64/SRR/007064/SRR7234525' 2019-07-05T15:52:27 fasterq-dump.2.9.6 err: invalid accession 'SRR7234525' 2019-07-05T15:52:42 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' 2019-07-05T15:52:42 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/sra64/SRR/007064/SRR7234525' 2019-07-05T15:52:42 fasterq-dump.2.9.6 err: invalid accession 'SRR7234525' 2019-07-05T15:52:57 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' 2019-07-05T15:52:57 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/sra64/SRR/007064/SRR7234525' 2019-07-05T15:52:57 fasterq-dump.2.9.6 err: invalid accession 'SRR7234525' 2019-07-05T15:53:19 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' 2019-07-05T15:53:19 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/sra64/SRR/007064/SRR7234525' 2019-07-05T15:53:19 fasterq-dump.2.9.6 err: invalid accession 'SRR7234525' 2019-07-05T15:53:34 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' 2019-07-05T15:53:34 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/sra64/SRR/007064/SRR7234525' 2019-07-05T15:53:34 fasterq-dump.2.9.6 err: invalid accession 'SRR7234525' 2019-07-05T15:53:49 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' 2019-07-05T15:53:49 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/sra64/SRR/007064/SRR7234525' 2019-07-05T15:53:49 fasterq-dump.2.9.6 err: invalid accession 'SRR7234525' 2019-07-05T15:54:03 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' 2019-07-05T15:54:03 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/sra64/SRR/007064/SRR7234525' 2019-07-05T15:54:03 fasterq-dump.2.9.6 err: invalid accession 'SRR7234525' spots read : 8,300,817 reads read : 16,601,634 reads written : 8,300,817 reads 0-length : 8,300,817 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: 00:02:40 8300817 reads; of these: 8300817 (100.00%) were unpaired; of these: 485613 (5.85%) aligned 0 times 6776872 (81.64%) aligned exactly 1 time 1038332 (12.51%) aligned >1 times 94.15% overall alignment rate Time searching: 00:02:40 Overall time: 00:02:40 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] 2107629 / 7815204 = 0.2697 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 01:07:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.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 01:07:03: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:07:03: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:07:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.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 01:07:04: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:07:04: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:07:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.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 01:07:05: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:07:05: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:07:12: 1000000 INFO @ Sat, 06 Jul 2019 01:07:13: 1000000 INFO @ Sat, 06 Jul 2019 01:07:13: 1000000 INFO @ Sat, 06 Jul 2019 01:07:21: 2000000 INFO @ Sat, 06 Jul 2019 01:07:22: 2000000 INFO @ Sat, 06 Jul 2019 01:07:22: 2000000 INFO @ Sat, 06 Jul 2019 01:07:31: 3000000 INFO @ Sat, 06 Jul 2019 01:07:31: 3000000 INFO @ Sat, 06 Jul 2019 01:07:31: 3000000 INFO @ Sat, 06 Jul 2019 01:07:39: 4000000 INFO @ Sat, 06 Jul 2019 01:07:39: 4000000 INFO @ Sat, 06 Jul 2019 01:07:40: 4000000 INFO @ Sat, 06 Jul 2019 01:07:47: 5000000 INFO @ Sat, 06 Jul 2019 01:07:48: 5000000 INFO @ Sat, 06 Jul 2019 01:07:49: 5000000 INFO @ Sat, 06 Jul 2019 01:07:53: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:07:53: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:07:53: #1 total tags in treatment: 5707575 INFO @ Sat, 06 Jul 2019 01:07:53: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:07:53: #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 01:07:53: #1 tags after filtering in treatment: 5707575 INFO @ Sat, 06 Jul 2019 01:07:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:07:53: #1 finished! INFO @ Sat, 06 Jul 2019 01:07:53: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:07:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:07:53: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:07:53: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:07:53: #1 total tags in treatment: 5707575 INFO @ Sat, 06 Jul 2019 01:07:53: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:07:53: #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 01:07:53: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:07:53: 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 01:07:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.20_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/SRX4140934/SRX4140934.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:07:53: #1 tags after filtering in treatment: 5707575 INFO @ Sat, 06 Jul 2019 01:07:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:07:53: #1 finished! INFO @ Sat, 06 Jul 2019 01:07:53: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:07:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:07:54: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:07:54: 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 01:07:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.10_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/SRX4140934/SRX4140934.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:07:55: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:07:55: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:07:55: #1 total tags in treatment: 5707575 INFO @ Sat, 06 Jul 2019 01:07:55: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:07:55: #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 01:07:55: #1 tags after filtering in treatment: 5707575 INFO @ Sat, 06 Jul 2019 01:07:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:07:55: #1 finished! INFO @ Sat, 06 Jul 2019 01:07:55: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:07:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:07:55: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:07:55: 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 01:07:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.05_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/SRX4140934/SRX4140934.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140934/SRX4140934.05_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。