Job ID = 10453722 sra ファイルのダウンロード中... Completed: 785004K bytes transferred in 13 seconds (470884K bits/sec), in 1 file. sra ファイルのダウンロードが完了しました。 Read layout: SINGLE fastq に変換中... Written 17825628 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3560270/SRR6470383.sra Written 17825628 spots total rm: cannot remove `[DSE]RX*': No such file or directory rm: cannot remove `[DSE]RR*.fastq': 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: 00:18:37 17825628 reads; of these: 17825628 (100.00%) were unpaired; of these: 970586 (5.44%) aligned 0 times 15078156 (84.59%) aligned exactly 1 time 1776886 (9.97%) aligned >1 times 94.56% overall alignment rate Time searching: 00:18:37 Overall time: 00:18:37 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] 6877724 / 16855042 = 0.4081 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 @ Thu, 08 Feb 2018 18:40:54: # Command line: callpeak -t SRX3560270.bam -f BAM -g 12100000 -n SRX3560270.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3560270.20 # format = BAM # ChIP-seq file = ['SRX3560270.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 @ Thu, 08 Feb 2018 18:40:54: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:40:54: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:40:54: # Command line: callpeak -t SRX3560270.bam -f BAM -g 12100000 -n SRX3560270.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3560270.10 # format = BAM # ChIP-seq file = ['SRX3560270.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 @ Thu, 08 Feb 2018 18:40:54: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:40:54: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:40:54: # Command line: callpeak -t SRX3560270.bam -f BAM -g 12100000 -n SRX3560270.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3560270.05 # format = BAM # ChIP-seq file = ['SRX3560270.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 @ Thu, 08 Feb 2018 18:40:54: #1 read tag files... INFO @ Thu, 08 Feb 2018 18:40:54: #1 read treatment tags... INFO @ Thu, 08 Feb 2018 18:41:10: 1000000 INFO @ Thu, 08 Feb 2018 18:41:10: 1000000 INFO @ Thu, 08 Feb 2018 18:41:13: 1000000 INFO @ Thu, 08 Feb 2018 18:41:27: 2000000 INFO @ Thu, 08 Feb 2018 18:41:29: 2000000 INFO @ Thu, 08 Feb 2018 18:41:34: 2000000 INFO @ Thu, 08 Feb 2018 18:41:49: 3000000 INFO @ Thu, 08 Feb 2018 18:41:50: 3000000 INFO @ Thu, 08 Feb 2018 18:41:50: 3000000 INFO @ Thu, 08 Feb 2018 18:42:05: 4000000 INFO @ Thu, 08 Feb 2018 18:42:07: 4000000 INFO @ Thu, 08 Feb 2018 18:42:07: 4000000 INFO @ Thu, 08 Feb 2018 18:42:21: 5000000 INFO @ Thu, 08 Feb 2018 18:42:25: 5000000 INFO @ Thu, 08 Feb 2018 18:42:27: 5000000 INFO @ Thu, 08 Feb 2018 18:42:40: 6000000 INFO @ Thu, 08 Feb 2018 18:42:40: 6000000 INFO @ Thu, 08 Feb 2018 18:42:41: 6000000 INFO @ Thu, 08 Feb 2018 18:42:56: 7000000 INFO @ Thu, 08 Feb 2018 18:42:58: 7000000 INFO @ Thu, 08 Feb 2018 18:43:01: 7000000 INFO @ Thu, 08 Feb 2018 18:43:07: 8000000 INFO @ Thu, 08 Feb 2018 18:43:16: 8000000 INFO @ Thu, 08 Feb 2018 18:43:16: 9000000 INFO @ Thu, 08 Feb 2018 18:43:22: 8000000 INFO @ Thu, 08 Feb 2018 18:43:26: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:43:26: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:43:26: #1 total tags in treatment: 9977318 INFO @ Thu, 08 Feb 2018 18:43:26: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:43:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:43:26: #1 tags after filtering in treatment: 9977318 INFO @ Thu, 08 Feb 2018 18:43:26: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:43:26: #1 finished! INFO @ Thu, 08 Feb 2018 18:43:26: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:43:26: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:43:27: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:43:27: 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 @ Thu, 08 Feb 2018 18:43:27: Process for pairing-model is terminated! cat: SRX3560270.05_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 `SRX3560270.05_model.r': No such file or directory rm: cannot remove `SRX3560270.05_*.xls': No such file or directory rm: cannot remove `SRX3560270.05_peaks.narrowPeak': No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Feb 2018 18:43:33: 9000000 INFO @ Thu, 08 Feb 2018 18:43:44: 9000000 INFO @ Thu, 08 Feb 2018 18:43:51: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:43:51: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:43:51: #1 total tags in treatment: 9977318 INFO @ Thu, 08 Feb 2018 18:43:51: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:43:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:43:52: #1 tags after filtering in treatment: 9977318 INFO @ Thu, 08 Feb 2018 18:43:52: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:43:52: #1 finished! INFO @ Thu, 08 Feb 2018 18:43:52: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:43:52: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:43:52: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:43:52: 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 @ Thu, 08 Feb 2018 18:43:52: Process for pairing-model is terminated! cat: SRX3560270.10_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 `SRX3560270.10_model.r': No such file or directory rm: cannot remove `SRX3560270.10_*.xls': No such file or directory rm: cannot remove `SRX3560270.10_peaks.narrowPeak': No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Feb 2018 18:43:57: #1 tag size is determined as 125 bps INFO @ Thu, 08 Feb 2018 18:43:57: #1 tag size = 125 INFO @ Thu, 08 Feb 2018 18:43:57: #1 total tags in treatment: 9977318 INFO @ Thu, 08 Feb 2018 18:43:57: #1 user defined the maximum tags... INFO @ Thu, 08 Feb 2018 18:43:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Feb 2018 18:43:58: #1 tags after filtering in treatment: 9977318 INFO @ Thu, 08 Feb 2018 18:43:58: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Feb 2018 18:43:58: #1 finished! INFO @ Thu, 08 Feb 2018 18:43:58: #2 Build Peak Model... INFO @ Thu, 08 Feb 2018 18:43:58: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Feb 2018 18:43:58: #2 number of paired peaks: 0 WARNING @ Thu, 08 Feb 2018 18:43:58: 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 @ Thu, 08 Feb 2018 18:43:58: Process for pairing-model is terminated! cat: SRX3560270.20_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 `SRX3560270.20_model.r': No such file or directory rm: cannot remove `SRX3560270.20_*.xls': No such file or directory rm: cannot remove `SRX3560270.20_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。