Job ID = 10536399 sra ファイルのダウンロード中... Completed: 1141002K bytes transferred in 22 seconds (415650K 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: PAIRED fastq に変換中... Written 28628745 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671149/SRR6696901.sra Written 28628745 spots total 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: 00:17:19 28628745 reads; of these: 28628745 (100.00%) were paired; of these: 8826186 (30.83%) aligned concordantly 0 times 17411894 (60.82%) aligned concordantly exactly 1 time 2390665 (8.35%) aligned concordantly >1 times ---- 8826186 pairs aligned concordantly 0 times; of these: 64023 (0.73%) aligned discordantly 1 time ---- 8762163 pairs aligned 0 times concordantly or discordantly; of these: 17524326 mates make up the pairs; of these: 17167336 (97.96%) aligned 0 times 291151 (1.66%) aligned exactly 1 time 65839 (0.38%) aligned >1 times 70.02% overall alignment rate Time searching: 00:17:19 Overall time: 00:17:19 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 20 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 11063616 / 19810952 = 0.5585 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, 05 Apr 2018 09:44:26: # Command line: callpeak -t SRX3671149.bam -f BAM -g 12100000 -n SRX3671149.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671149.10 # format = BAM # ChIP-seq file = ['SRX3671149.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, 05 Apr 2018 09:44:26: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:44:26: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:44:26: # Command line: callpeak -t SRX3671149.bam -f BAM -g 12100000 -n SRX3671149.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671149.20 # format = BAM # ChIP-seq file = ['SRX3671149.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, 05 Apr 2018 09:44:26: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:44:26: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:44:26: # Command line: callpeak -t SRX3671149.bam -f BAM -g 12100000 -n SRX3671149.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671149.05 # format = BAM # ChIP-seq file = ['SRX3671149.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, 05 Apr 2018 09:44:26: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:44:26: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:44:33: 1000000 INFO @ Thu, 05 Apr 2018 09:44:33: 1000000 INFO @ Thu, 05 Apr 2018 09:44:33: 1000000 INFO @ Thu, 05 Apr 2018 09:44:39: 2000000 INFO @ Thu, 05 Apr 2018 09:44:39: 2000000 INFO @ Thu, 05 Apr 2018 09:44:39: 2000000 INFO @ Thu, 05 Apr 2018 09:44:45: 3000000 INFO @ Thu, 05 Apr 2018 09:44:46: 3000000 INFO @ Thu, 05 Apr 2018 09:44:46: 3000000 INFO @ Thu, 05 Apr 2018 09:44:51: 4000000 INFO @ Thu, 05 Apr 2018 09:44:53: 4000000 INFO @ Thu, 05 Apr 2018 09:44:53: 4000000 INFO @ Thu, 05 Apr 2018 09:44:57: 5000000 INFO @ Thu, 05 Apr 2018 09:44:59: 5000000 INFO @ Thu, 05 Apr 2018 09:44:59: 5000000 INFO @ Thu, 05 Apr 2018 09:45:03: 6000000 INFO @ Thu, 05 Apr 2018 09:45:06: 6000000 INFO @ Thu, 05 Apr 2018 09:45:06: 6000000 INFO @ Thu, 05 Apr 2018 09:45:10: 7000000 INFO @ Thu, 05 Apr 2018 09:45:13: 7000000 INFO @ Thu, 05 Apr 2018 09:45:13: 7000000 INFO @ Thu, 05 Apr 2018 09:45:16: 8000000 INFO @ Thu, 05 Apr 2018 09:45:19: 8000000 INFO @ Thu, 05 Apr 2018 09:45:19: 8000000 INFO @ Thu, 05 Apr 2018 09:45:22: 9000000 INFO @ Thu, 05 Apr 2018 09:45:26: 9000000 INFO @ Thu, 05 Apr 2018 09:45:26: 9000000 INFO @ Thu, 05 Apr 2018 09:45:28: 10000000 INFO @ Thu, 05 Apr 2018 09:45:32: 10000000 INFO @ Thu, 05 Apr 2018 09:45:32: 10000000 INFO @ Thu, 05 Apr 2018 09:45:34: 11000000 INFO @ Thu, 05 Apr 2018 09:45:39: 11000000 INFO @ Thu, 05 Apr 2018 09:45:39: 11000000 INFO @ Thu, 05 Apr 2018 09:45:40: 12000000 INFO @ Thu, 05 Apr 2018 09:45:45: 12000000 INFO @ Thu, 05 Apr 2018 09:45:45: 12000000 INFO @ Thu, 05 Apr 2018 09:45:46: 13000000 INFO @ Thu, 05 Apr 2018 09:45:51: 13000000 INFO @ Thu, 05 Apr 2018 09:45:51: 13000000 INFO @ Thu, 05 Apr 2018 09:45:52: 14000000 INFO @ Thu, 05 Apr 2018 09:45:58: 14000000 INFO @ Thu, 05 Apr 2018 09:45:58: 14000000 INFO @ Thu, 05 Apr 2018 09:45:58: 15000000 INFO @ Thu, 05 Apr 2018 09:46:04: 15000000 INFO @ Thu, 05 Apr 2018 09:46:04: 15000000 INFO @ Thu, 05 Apr 2018 09:46:04: 16000000 INFO @ Thu, 05 Apr 2018 09:46:10: 17000000 INFO @ Thu, 05 Apr 2018 09:46:10: 16000000 INFO @ Thu, 05 Apr 2018 09:46:10: 16000000 INFO @ Thu, 05 Apr 2018 09:46:16: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:46:16: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:46:16: #1 total tags in treatment: 8742839 INFO @ Thu, 05 Apr 2018 09:46:16: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:46:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 09:46:16: #1 tags after filtering in treatment: 6746241 INFO @ Thu, 05 Apr 2018 09:46:16: #1 Redundant rate of treatment: 0.23 INFO @ Thu, 05 Apr 2018 09:46:16: #1 finished! INFO @ Thu, 05 Apr 2018 09:46:16: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:46:16: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:46:16: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:46:16: 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, 05 Apr 2018 09:46:16: Process for pairing-model is terminated! cat: SRX3671149.05_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 `SRX3671149.05_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 `SRX3671149.05_*.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 `SRX3671149.05_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 @ Thu, 05 Apr 2018 09:46:17: 17000000 INFO @ Thu, 05 Apr 2018 09:46:17: 17000000 INFO @ Thu, 05 Apr 2018 09:46:23: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:46:23: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:46:23: #1 total tags in treatment: 8742839 INFO @ Thu, 05 Apr 2018 09:46:23: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:46:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 09:46:23: #1 tags after filtering in treatment: 6746241 INFO @ Thu, 05 Apr 2018 09:46:23: #1 Redundant rate of treatment: 0.23 INFO @ Thu, 05 Apr 2018 09:46:23: #1 finished! INFO @ Thu, 05 Apr 2018 09:46:23: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:46:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:46:23: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:46:23: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:46:23: #1 total tags in treatment: 8742839 INFO @ Thu, 05 Apr 2018 09:46:23: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:46:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 09:46:23: #1 tags after filtering in treatment: 6746241 INFO @ Thu, 05 Apr 2018 09:46:23: #1 Redundant rate of treatment: 0.23 INFO @ Thu, 05 Apr 2018 09:46:23: #1 finished! INFO @ Thu, 05 Apr 2018 09:46:23: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:46:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:46:23: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:46:23: 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, 05 Apr 2018 09:46:23: Process for pairing-model is terminated! cat: SRX3671149.20_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 `SRX3671149.20_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 `SRX3671149.20_*.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 `SRX3671149.20_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 INFO @ Thu, 05 Apr 2018 09:46:24: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:46:24: 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, 05 Apr 2018 09:46:24: Process for pairing-model is terminated! cat: SRX3671149.10_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671149.10_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 `SRX3671149.10_*.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 `SRX3671149.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。