Job ID = 2010217 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T12:48:15 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' 2019-07-05T12:48:15 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/SRR6184440' 2019-07-05T12:48:15 fasterq-dump.2.9.6 err: cmn_iter.c cmn_get_table_names( 'SRR6184440' ).VDBManagerOpenDBRead() -> RC(rcNS,rcNoTarg,rcValidating,rcConnection,rcBusy) 2019-07-05T12:48:19 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' 2019-07-05T12:48:19 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/sra53/SRR/006039/SRR6184440' 2019-07-05T12:48:19 fasterq-dump.2.9.6 err: cmn_iter.c cmn_iter_open_db().VDBManagerOpenDBRead( 'SRR6184440' ) -> RC(rcNS,rcNoTarg,rcValidating,rcConnection,rcBusy) 2019-07-05T12:48:24 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' 2019-07-05T12:48:24 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/SRR6184440' 2019-07-05T12:48:24 fasterq-dump.2.9.6 err: invalid accession 'SRR6184440' 2019-07-05T12:48:39 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' 2019-07-05T12:48:39 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/SRR6184440' 2019-07-05T12:48:39 fasterq-dump.2.9.6 err: invalid accession 'SRR6184440' 2019-07-05T12:48:54 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' 2019-07-05T12:48:54 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/SRR6184440' 2019-07-05T12:48:54 fasterq-dump.2.9.6 err: invalid accession 'SRR6184440' spots read : 8,077,810 reads read : 16,155,620 reads written : 8,077,810 reads 0-length : 8,077,810 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: 00:01:31 8077810 reads; of these: 8077810 (100.00%) were unpaired; of these: 619238 (7.67%) aligned 0 times 6593599 (81.63%) aligned exactly 1 time 864973 (10.71%) aligned >1 times 92.33% overall alignment rate Time searching: 00:01:31 Overall time: 00:01:31 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] 1782239 / 7458572 = 0.2390 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 21:56:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.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 21:56:45: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:56:45: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:56:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.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 21:56:46: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:56:46: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:56:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.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 21:56:47: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:56:47: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:56:53: 1000000 INFO @ Fri, 05 Jul 2019 21:56:53: 1000000 INFO @ Fri, 05 Jul 2019 21:56:56: 1000000 INFO @ Fri, 05 Jul 2019 21:57:00: 2000000 INFO @ Fri, 05 Jul 2019 21:57:01: 2000000 INFO @ Fri, 05 Jul 2019 21:57:04: 2000000 INFO @ Fri, 05 Jul 2019 21:57:07: 3000000 INFO @ Fri, 05 Jul 2019 21:57:09: 3000000 INFO @ Fri, 05 Jul 2019 21:57:12: 3000000 INFO @ Fri, 05 Jul 2019 21:57:13: 4000000 INFO @ Fri, 05 Jul 2019 21:57:16: 4000000 INFO @ Fri, 05 Jul 2019 21:57:19: 4000000 INFO @ Fri, 05 Jul 2019 21:57:20: 5000000 INFO @ Fri, 05 Jul 2019 21:57:23: 5000000 INFO @ Fri, 05 Jul 2019 21:57:24: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 21:57:24: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 21:57:24: #1 total tags in treatment: 5676333 INFO @ Fri, 05 Jul 2019 21:57:24: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:57:24: #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 21:57:24: #1 tags after filtering in treatment: 5676333 INFO @ Fri, 05 Jul 2019 21:57:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:57:24: #1 finished! INFO @ Fri, 05 Jul 2019 21:57:24: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:57:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:57:24: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:57:24: 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 21:57:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.10_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/SRX3294588/SRX3294588.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:57:26: 5000000 INFO @ Fri, 05 Jul 2019 21:57:28: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 21:57:28: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 21:57:28: #1 total tags in treatment: 5676333 INFO @ Fri, 05 Jul 2019 21:57:28: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:57:28: #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 21:57:28: #1 tags after filtering in treatment: 5676333 INFO @ Fri, 05 Jul 2019 21:57:28: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:57:28: #1 finished! INFO @ Fri, 05 Jul 2019 21:57:28: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:57:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:57:28: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:57:28: 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 21:57:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.05_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/SRX3294588/SRX3294588.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:57:31: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 21:57:31: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 21:57:31: #1 total tags in treatment: 5676333 INFO @ Fri, 05 Jul 2019 21:57:31: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:57:31: #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 21:57:31: #1 tags after filtering in treatment: 5676333 INFO @ Fri, 05 Jul 2019 21:57:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:57:31: #1 finished! INFO @ Fri, 05 Jul 2019 21:57:31: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:57:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:57:31: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:57:31: 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 21:57:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.20_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/SRX3294588/SRX3294588.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294588/SRX3294588.20_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。