Job ID = 11193084 sra ファイルのダウンロード中... Completed: 363225K bytes transferred in 6 seconds (449504K 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... Read 17987444 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4233975/SRR7361126.sra Written 17987444 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4233975/SRR7361126.sra rm: cannot remove `[DSE]RX*': そのようなファイルやディレクトリはありません rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません 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: 00:02:56 17987444 reads; of these: 17987444 (100.00%) were unpaired; of these: 759600 (4.22%) aligned 0 times 15993010 (88.91%) aligned exactly 1 time 1234834 (6.86%) aligned >1 times 95.78% overall alignment rate Time searching: 00:02:56 Overall time: 00:02:56 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] 6138181 / 17227844 = 0.3563 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, 15 Sep 2018 11:01:39: # Command line: callpeak -t SRX4233975.bam -f BAM -g 12100000 -n SRX4233975.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4233975.05 # format = BAM # ChIP-seq file = ['SRX4233975.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, 15 Sep 2018 11:01:39: #1 read tag files... INFO @ Sat, 15 Sep 2018 11:01:39: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 11:01:39: # Command line: callpeak -t SRX4233975.bam -f BAM -g 12100000 -n SRX4233975.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4233975.20 # format = BAM # ChIP-seq file = ['SRX4233975.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, 15 Sep 2018 11:01:39: #1 read tag files... INFO @ Sat, 15 Sep 2018 11:01:39: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 11:01:39: # Command line: callpeak -t SRX4233975.bam -f BAM -g 12100000 -n SRX4233975.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4233975.10 # format = BAM # ChIP-seq file = ['SRX4233975.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, 15 Sep 2018 11:01:39: #1 read tag files... INFO @ Sat, 15 Sep 2018 11:01:39: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 11:01:45: 1000000 INFO @ Sat, 15 Sep 2018 11:01:45: 1000000 INFO @ Sat, 15 Sep 2018 11:01:45: 1000000 INFO @ Sat, 15 Sep 2018 11:01:51: 2000000 INFO @ Sat, 15 Sep 2018 11:01:51: 2000000 INFO @ Sat, 15 Sep 2018 11:01:51: 2000000 INFO @ Sat, 15 Sep 2018 11:01:57: 3000000 INFO @ Sat, 15 Sep 2018 11:01:58: 3000000 INFO @ Sat, 15 Sep 2018 11:01:58: 3000000 INFO @ Sat, 15 Sep 2018 11:02:04: 4000000 INFO @ Sat, 15 Sep 2018 11:02:04: 4000000 INFO @ Sat, 15 Sep 2018 11:02:04: 4000000 INFO @ Sat, 15 Sep 2018 11:02:10: 5000000 INFO @ Sat, 15 Sep 2018 11:02:10: 5000000 INFO @ Sat, 15 Sep 2018 11:02:10: 5000000 INFO @ Sat, 15 Sep 2018 11:02:16: 6000000 INFO @ Sat, 15 Sep 2018 11:02:16: 6000000 INFO @ Sat, 15 Sep 2018 11:02:17: 6000000 INFO @ Sat, 15 Sep 2018 11:02:22: 7000000 INFO @ Sat, 15 Sep 2018 11:02:23: 7000000 INFO @ Sat, 15 Sep 2018 11:02:23: 7000000 INFO @ Sat, 15 Sep 2018 11:02:28: 8000000 INFO @ Sat, 15 Sep 2018 11:02:29: 8000000 INFO @ Sat, 15 Sep 2018 11:02:29: 8000000 INFO @ Sat, 15 Sep 2018 11:02:34: 9000000 INFO @ Sat, 15 Sep 2018 11:02:35: 9000000 INFO @ Sat, 15 Sep 2018 11:02:35: 9000000 INFO @ Sat, 15 Sep 2018 11:02:41: 10000000 INFO @ Sat, 15 Sep 2018 11:02:42: 10000000 INFO @ Sat, 15 Sep 2018 11:02:42: 10000000 INFO @ Sat, 15 Sep 2018 11:02:47: 11000000 INFO @ Sat, 15 Sep 2018 11:02:47: #1 tag size is determined as 47 bps INFO @ Sat, 15 Sep 2018 11:02:47: #1 tag size = 47 INFO @ Sat, 15 Sep 2018 11:02:47: #1 total tags in treatment: 11089663 INFO @ Sat, 15 Sep 2018 11:02:47: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 11:02:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 11:02:48: #1 tags after filtering in treatment: 11089663 INFO @ Sat, 15 Sep 2018 11:02:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 11:02:48: #1 finished! INFO @ Sat, 15 Sep 2018 11:02:48: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 11:02:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 11:02:48: 11000000 INFO @ Sat, 15 Sep 2018 11:02:48: 11000000 INFO @ Sat, 15 Sep 2018 11:02:48: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 11:02:48: 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, 15 Sep 2018 11:02:48: Process for pairing-model is terminated! cat: SRX4233975.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4233975.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4233975.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4233975.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Sat, 15 Sep 2018 11:02:48: #1 tag size is determined as 47 bps INFO @ Sat, 15 Sep 2018 11:02:48: #1 tag size = 47 INFO @ Sat, 15 Sep 2018 11:02:48: #1 total tags in treatment: 11089663 INFO @ Sat, 15 Sep 2018 11:02:48: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 11:02:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 11:02:49: #1 tag size is determined as 47 bps INFO @ Sat, 15 Sep 2018 11:02:49: #1 tag size = 47 INFO @ Sat, 15 Sep 2018 11:02:49: #1 total tags in treatment: 11089663 INFO @ Sat, 15 Sep 2018 11:02:49: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 11:02:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 11:02:49: #1 tags after filtering in treatment: 11089663 INFO @ Sat, 15 Sep 2018 11:02:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 11:02:49: #1 finished! INFO @ Sat, 15 Sep 2018 11:02:49: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 11:02:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 11:02:49: #1 tags after filtering in treatment: 11089663 INFO @ Sat, 15 Sep 2018 11:02:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 11:02:49: #1 finished! INFO @ Sat, 15 Sep 2018 11:02:49: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 11:02:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 11:02:49: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 11:02:49: 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, 15 Sep 2018 11:02:49: Process for pairing-model is terminated! cat: SRX4233975.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4233975.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4233975.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4233975.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Sat, 15 Sep 2018 11:02:49: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 11:02:49: 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, 15 Sep 2018 11:02:49: Process for pairing-model is terminated! cat: SRX4233975.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4233975.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4233975.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4233975.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。