Job ID = 2010827 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T15:52:22 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' 2019-07-05T15:52:22 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/SRR7234527' 2019-07-05T15:52:22 fasterq-dump.2.9.6 err: invalid accession 'SRR7234527' 2019-07-05T15:52:38 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' 2019-07-05T15:52:38 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/SRR7234527' 2019-07-05T15:52:38 fasterq-dump.2.9.6 err: invalid accession 'SRR7234527' 2019-07-05T15:52:53 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' 2019-07-05T15:52:53 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/SRR7234527' 2019-07-05T15:52:53 fasterq-dump.2.9.6 err: invalid accession 'SRR7234527' 2019-07-05T15:53:18 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' 2019-07-05T15:53:18 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/sra64/SRR/007064/SRR7234527' 2019-07-05T15:53:18 fasterq-dump.2.9.6 err: invalid accession 'SRR7234527' 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/SRR7234527' 2019-07-05T15:53:34 fasterq-dump.2.9.6 err: invalid accession 'SRR7234527' 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/SRR7234527' 2019-07-05T15:53:49 fasterq-dump.2.9.6 err: invalid accession 'SRR7234527' 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/SRR7234527' 2019-07-05T15:54:04 fasterq-dump.2.9.6 err: invalid accession 'SRR7234527' spots read : 6,297,478 reads read : 12,594,956 reads written : 6,297,478 reads 0-length : 6,297,478 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: 00:02:17 6297478 reads; of these: 6297478 (100.00%) were unpaired; of these: 545986 (8.67%) aligned 0 times 5028380 (79.85%) aligned exactly 1 time 723112 (11.48%) aligned >1 times 91.33% overall alignment rate Time searching: 00:02:17 Overall time: 00:02:17 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] 1187225 / 5751492 = 0.2064 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 01:05:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.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 01:05:17: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:05:17: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:05:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.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 01:05:18: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:05:18: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:05:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.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 01:05:19: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:05:19: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:05:27: 1000000 INFO @ Sat, 06 Jul 2019 01:05:30: 1000000 INFO @ Sat, 06 Jul 2019 01:05:32: 1000000 INFO @ Sat, 06 Jul 2019 01:05:36: 2000000 INFO @ Sat, 06 Jul 2019 01:05:41: 2000000 INFO @ Sat, 06 Jul 2019 01:05:45: 3000000 INFO @ Sat, 06 Jul 2019 01:05:45: 2000000 INFO @ Sat, 06 Jul 2019 01:05:53: 3000000 INFO @ Sat, 06 Jul 2019 01:05:53: 4000000 INFO @ Sat, 06 Jul 2019 01:05:57: 3000000 INFO @ Sat, 06 Jul 2019 01:05:58: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:05:58: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:05:58: #1 total tags in treatment: 4564267 INFO @ Sat, 06 Jul 2019 01:05:58: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:05:58: #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 01:05:58: #1 tags after filtering in treatment: 4564267 INFO @ Sat, 06 Jul 2019 01:05:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:05:58: #1 finished! INFO @ Sat, 06 Jul 2019 01:05:58: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:05:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:05:58: #2 number of paired peaks: 31 WARNING @ Sat, 06 Jul 2019 01:05:58: Too few paired peaks (31) 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 01:05:58: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 01:06:04: 4000000 INFO @ Sat, 06 Jul 2019 01:06:09: 4000000 INFO @ Sat, 06 Jul 2019 01:06:11: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:06:11: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:06:11: #1 total tags in treatment: 4564267 INFO @ Sat, 06 Jul 2019 01:06:11: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:06:11: #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 01:06:11: #1 tags after filtering in treatment: 4564267 INFO @ Sat, 06 Jul 2019 01:06:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:06:11: #1 finished! INFO @ Sat, 06 Jul 2019 01:06:11: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:06:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:06:11: #2 number of paired peaks: 31 WARNING @ Sat, 06 Jul 2019 01:06:11: Too few paired peaks (31) 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 01:06:11: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 01:06:15: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:06:15: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:06:15: #1 total tags in treatment: 4564267 INFO @ Sat, 06 Jul 2019 01:06:15: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:06:15: #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 01:06:15: #1 tags after filtering in treatment: 4564267 INFO @ Sat, 06 Jul 2019 01:06:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:06:15: #1 finished! INFO @ Sat, 06 Jul 2019 01:06:15: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:06:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:06:16: #2 number of paired peaks: 31 WARNING @ Sat, 06 Jul 2019 01:06:16: Too few paired peaks (31) 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 01:06:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.20_peaks.narrowPeak: No such file or directorycut: /home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.20_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140936/SRX4140936.05_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。