Job ID = 2010214 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T12:48:13 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' 2019-07-05T12:48:13 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/SRR6184438' 2019-07-05T12:48:13 fasterq-dump.2.9.6 err: cmn_iter.c cmn_get_acc_type( 'SRR6184438', 'SEQUENCE', 'NAME' ).VDBManagerOpenDBRead() -> RC(rcNS,rcNoTarg,rcValidating,rcConnection,rcBusy) 2019-07-05T12:48:18 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' 2019-07-05T12:48:18 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/SRR6184438' 2019-07-05T12:48:18 fasterq-dump.2.9.6 err: invalid accession 'SRR6184438' 2019-07-05T12:48:33 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' 2019-07-05T12:48:33 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/SRR6184438' 2019-07-05T12:48:33 fasterq-dump.2.9.6 err: invalid accession 'SRR6184438' 2019-07-05T12:48:48 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' 2019-07-05T12:48:48 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/SRR6184438' 2019-07-05T12:48:48 fasterq-dump.2.9.6 err: invalid accession 'SRR6184438' 2019-07-05T12:49:02 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' 2019-07-05T12:49:02 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/SRR6184438' 2019-07-05T12:49:02 fasterq-dump.2.9.6 err: invalid accession 'SRR6184438' spots read : 8,100,836 reads read : 16,201,672 reads written : 8,100,836 reads 0-length : 8,100,836 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: 00:01:49 8100836 reads; of these: 8100836 (100.00%) were unpaired; of these: 614581 (7.59%) aligned 0 times 6620986 (81.73%) aligned exactly 1 time 865269 (10.68%) aligned >1 times 92.41% overall alignment rate Time searching: 00:01:49 Overall time: 00:01:49 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] 1703755 / 7486255 = 0.2276 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 21:57:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.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 21:57:15: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:57:15: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:57:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.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 21:57:16: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:57:16: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:57:22: 1000000 INFO @ Fri, 05 Jul 2019 21:57:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.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 21:57:24: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:57:24: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:57:24: 1000000 INFO @ Fri, 05 Jul 2019 21:57:30: 2000000 INFO @ Fri, 05 Jul 2019 21:57:32: 2000000 INFO @ Fri, 05 Jul 2019 21:57:32: 1000000 INFO @ Fri, 05 Jul 2019 21:57:38: 3000000 INFO @ Fri, 05 Jul 2019 21:57:39: 3000000 INFO @ Fri, 05 Jul 2019 21:57:40: 2000000 INFO @ Fri, 05 Jul 2019 21:57:45: 4000000 INFO @ Fri, 05 Jul 2019 21:57:46: 4000000 INFO @ Fri, 05 Jul 2019 21:57:47: 3000000 INFO @ Fri, 05 Jul 2019 21:57:52: 5000000 INFO @ Fri, 05 Jul 2019 21:57:53: 5000000 INFO @ Fri, 05 Jul 2019 21:57:55: 4000000 INFO @ Fri, 05 Jul 2019 21:57:58: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 21:57:58: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 21:57:58: #1 total tags in treatment: 5782500 INFO @ Fri, 05 Jul 2019 21:57:58: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:57:58: #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 21:57:58: #1 tags after filtering in treatment: 5782500 INFO @ Fri, 05 Jul 2019 21:57:58: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:57:58: #1 finished! INFO @ Fri, 05 Jul 2019 21:57:58: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:57:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:57:58: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:57:58: 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 21:57:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.05_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/SRX3294586/SRX3294586.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:57:59: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 21:57:59: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 21:57:59: #1 total tags in treatment: 5782500 INFO @ Fri, 05 Jul 2019 21:57:59: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:57:59: #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 21:57:59: #1 tags after filtering in treatment: 5782500 INFO @ Fri, 05 Jul 2019 21:57:59: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:57:59: #1 finished! INFO @ Fri, 05 Jul 2019 21:57:59: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:57:59: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:57:59: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:57:59: 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 21:57:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.10_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/SRX3294586/SRX3294586.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:58:02: 5000000 INFO @ Fri, 05 Jul 2019 21:58:08: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 21:58:08: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 21:58:08: #1 total tags in treatment: 5782500 INFO @ Fri, 05 Jul 2019 21:58:08: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:58:08: #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 21:58:08: #1 tags after filtering in treatment: 5782500 INFO @ Fri, 05 Jul 2019 21:58:08: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:58:08: #1 finished! INFO @ Fri, 05 Jul 2019 21:58:08: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:58:08: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:58:08: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:58:08: 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 21:58:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.20_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/SRX3294586/SRX3294586.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294586/SRX3294586.20_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。