Job ID = 2010826 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T15:52:06 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' 2019-07-05T15:52:06 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/SRR7234526' 2019-07-05T15:52:06 fasterq-dump.2.9.6 err: cmn_iter.c cmn_get_acc_type( 'SRR7234526', 'SEQUENCE', 'NAME' ).VDBManagerOpenDBRead() -> RC(rcNS,rcNoTarg,rcValidating,rcConnection,rcBusy) 2019-07-05T15:52:10 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' 2019-07-05T15:52:10 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/SRR7234526' 2019-07-05T15:52:10 fasterq-dump.2.9.6 err: invalid accession 'SRR7234526' 2019-07-05T15:52:26 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' 2019-07-05T15:52:26 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/SRR7234526' 2019-07-05T15:52:26 fasterq-dump.2.9.6 err: invalid accession 'SRR7234526' 2019-07-05T15:52:41 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' 2019-07-05T15:52:41 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/SRR7234526' 2019-07-05T15:52:41 fasterq-dump.2.9.6 err: invalid accession 'SRR7234526' 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/SRR7234526' 2019-07-05T15:52:57 fasterq-dump.2.9.6 err: invalid accession 'SRR7234526' 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/SRR7234526' 2019-07-05T15:53:19 fasterq-dump.2.9.6 err: invalid accession 'SRR7234526' 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/SRR7234526' 2019-07-05T15:53:34 fasterq-dump.2.9.6 err: invalid accession 'SRR7234526' 2019-07-05T15:53:48 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' 2019-07-05T15:53:48 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/sra64/SRR/007064/SRR7234526' 2019-07-05T15:53:48 fasterq-dump.2.9.6 err: invalid accession 'SRR7234526' 2019-07-05T15:54:04 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' 2019-07-05T15:54:04 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/sra64/SRR/007064/SRR7234526' 2019-07-05T15:54:04 fasterq-dump.2.9.6 err: invalid accession 'SRR7234526' spots read : 10,989,230 reads read : 21,978,460 reads written : 10,989,230 reads 0-length : 10,989,230 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: 00:03:46 10989230 reads; of these: 10989230 (100.00%) were unpaired; of these: 348932 (3.18%) aligned 0 times 9075552 (82.59%) aligned exactly 1 time 1564746 (14.24%) aligned >1 times 96.82% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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] 4553618 / 10640298 = 0.4280 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 01:10:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.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 01:10:55: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:10:55: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:10:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.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 01:10:56: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:10:56: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:10:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.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 01:10:57: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:10:57: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:11:08: 1000000 INFO @ Sat, 06 Jul 2019 01:11:09: 1000000 INFO @ Sat, 06 Jul 2019 01:11:10: 1000000 INFO @ Sat, 06 Jul 2019 01:11:18: 2000000 INFO @ Sat, 06 Jul 2019 01:11:25: 2000000 INFO @ Sat, 06 Jul 2019 01:11:25: 2000000 INFO @ Sat, 06 Jul 2019 01:11:26: 3000000 INFO @ Sat, 06 Jul 2019 01:11:35: 4000000 INFO @ Sat, 06 Jul 2019 01:11:38: 3000000 INFO @ Sat, 06 Jul 2019 01:11:39: 3000000 INFO @ Sat, 06 Jul 2019 01:11:44: 5000000 INFO @ Sat, 06 Jul 2019 01:11:51: 4000000 INFO @ Sat, 06 Jul 2019 01:11:52: 4000000 INFO @ Sat, 06 Jul 2019 01:11:53: 6000000 INFO @ Sat, 06 Jul 2019 01:11:53: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:11:53: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:11:53: #1 total tags in treatment: 6086680 INFO @ Sat, 06 Jul 2019 01:11:53: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:11:53: #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 01:11:53: #1 tags after filtering in treatment: 6086680 INFO @ Sat, 06 Jul 2019 01:11:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:11:53: #1 finished! INFO @ Sat, 06 Jul 2019 01:11:53: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:11:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:11:54: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:11:54: 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 01:11:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.10_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/SRX4140935/SRX4140935.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:12:01: 5000000 INFO @ Sat, 06 Jul 2019 01:12:03: 5000000 INFO @ Sat, 06 Jul 2019 01:12:12: 6000000 INFO @ Sat, 06 Jul 2019 01:12:12: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:12:12: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:12:12: #1 total tags in treatment: 6086680 INFO @ Sat, 06 Jul 2019 01:12:12: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:12:12: #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 01:12:12: #1 tags after filtering in treatment: 6086680 INFO @ Sat, 06 Jul 2019 01:12:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:12:12: #1 finished! INFO @ Sat, 06 Jul 2019 01:12:12: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:12:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:12:13: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:12:13: 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 01:12:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.05_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/SRX4140935/SRX4140935.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:12:16: 6000000 INFO @ Sat, 06 Jul 2019 01:12:17: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:12:17: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:12:17: #1 total tags in treatment: 6086680 INFO @ Sat, 06 Jul 2019 01:12:17: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:12:17: #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 01:12:17: #1 tags after filtering in treatment: 6086680 INFO @ Sat, 06 Jul 2019 01:12:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:12:17: #1 finished! INFO @ Sat, 06 Jul 2019 01:12:17: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:12:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:12:17: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:12:17: 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 01:12:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.20_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/SRX4140935/SRX4140935.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140935/SRX4140935.20_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。