Job ID = 2010832 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T15:52:38 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/SRR7234531' 2019-07-05T15:52:38 fasterq-dump.2.9.6 err: invalid accession 'SRR7234531' 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/SRR7234531' 2019-07-05T15:52:53 fasterq-dump.2.9.6 err: invalid accession 'SRR7234531' 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/SRR7234531' 2019-07-05T15:53:18 fasterq-dump.2.9.6 err: invalid accession 'SRR7234531' 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/SRR7234531' 2019-07-05T15:53:34 fasterq-dump.2.9.6 err: invalid accession 'SRR7234531' 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/SRR7234531' 2019-07-05T15:53:49 fasterq-dump.2.9.6 err: invalid accession 'SRR7234531' 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/SRR7234531' 2019-07-05T15:54:04 fasterq-dump.2.9.6 err: invalid accession 'SRR7234531' spots read : 5,582,685 reads read : 11,165,370 reads written : 5,582,685 reads 0-length : 5,582,685 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: 00:01:52 5582685 reads; of these: 5582685 (100.00%) were unpaired; of these: 552497 (9.90%) aligned 0 times 4451416 (79.74%) aligned exactly 1 time 578772 (10.37%) aligned >1 times 90.10% overall alignment rate Time searching: 00:01:52 Overall time: 00:01:52 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] 972044 / 5030188 = 0.1932 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 01:03:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.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 01:03:58: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:03:58: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:03:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.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 01:03:59: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:03:59: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:04:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.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 01:04:00: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:04:00: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:04:08: 1000000 INFO @ Sat, 06 Jul 2019 01:04:08: 1000000 INFO @ Sat, 06 Jul 2019 01:04:11: 1000000 INFO @ Sat, 06 Jul 2019 01:04:15: 2000000 INFO @ Sat, 06 Jul 2019 01:04:19: 2000000 INFO @ Sat, 06 Jul 2019 01:04:21: 2000000 INFO @ Sat, 06 Jul 2019 01:04:23: 3000000 INFO @ Sat, 06 Jul 2019 01:04:28: 3000000 INFO @ Sat, 06 Jul 2019 01:04:30: 3000000 INFO @ Sat, 06 Jul 2019 01:04:31: 4000000 INFO @ Sat, 06 Jul 2019 01:04:31: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:04:31: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:04:31: #1 total tags in treatment: 4058144 INFO @ Sat, 06 Jul 2019 01:04:31: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:04:31: #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 01:04:31: #1 tags after filtering in treatment: 4058144 INFO @ Sat, 06 Jul 2019 01:04:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:04:31: #1 finished! INFO @ Sat, 06 Jul 2019 01:04:31: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:04:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:04:31: #2 number of paired peaks: 46 WARNING @ Sat, 06 Jul 2019 01:04:31: Too few paired peaks (46) 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 01:04:31: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 01:04:38: 4000000 INFO @ Sat, 06 Jul 2019 01:04:38: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:04:38: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:04:38: #1 total tags in treatment: 4058144 INFO @ Sat, 06 Jul 2019 01:04:38: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:04:38: #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 01:04:38: #1 tags after filtering in treatment: 4058144 INFO @ Sat, 06 Jul 2019 01:04:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:04:38: #1 finished! INFO @ Sat, 06 Jul 2019 01:04:38: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:04:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:04:39: #2 number of paired peaks: 46 WARNING @ Sat, 06 Jul 2019 01:04:39: Too few paired peaks (46) 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 01:04:39: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 01:04:40: 4000000 INFO @ Sat, 06 Jul 2019 01:04:41: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:04:41: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:04:41: #1 total tags in treatment: 4058144 INFO @ Sat, 06 Jul 2019 01:04:41: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:04:41: #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 01:04:41: #1 tags after filtering in treatment: 4058144 INFO @ Sat, 06 Jul 2019 01:04:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:04:41: #1 finished! INFO @ Sat, 06 Jul 2019 01:04:41: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:04:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:04:41: #2 number of paired peaks: 46 WARNING @ Sat, 06 Jul 2019 01:04:41: Too few paired peaks (46) 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 01:04:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.05_peaks.narrowPeakcut: : No such file or directory/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.20_peaks.narrowPeak : No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.05_model.r’rm: : No such file or directorycannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.20_*.xls’ : No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.20_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140940/SRX4140940.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。