Job ID = 10536438 sra ファイルのダウンロード中... Completed: 1304163K bytes transferred in 50 seconds (213224K 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 32871394 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671163/SRR6696915.sra Written 32871394 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: 00:15:07 32871394 reads; of these: 32871394 (100.00%) were paired; of these: 15119586 (46.00%) aligned concordantly 0 times 15497274 (47.15%) aligned concordantly exactly 1 time 2254534 (6.86%) aligned concordantly >1 times ---- 15119586 pairs aligned concordantly 0 times; of these: 42499 (0.28%) aligned discordantly 1 time ---- 15077087 pairs aligned 0 times concordantly or discordantly; of these: 30154174 mates make up the pairs; of these: 29770500 (98.73%) aligned 0 times 317636 (1.05%) aligned exactly 1 time 66038 (0.22%) aligned >1 times 54.72% overall alignment rate Time searching: 00:15:07 Overall time: 00:15:07 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 16 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] 7847787 / 17766926 = 0.4417 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 09:54:44: # Command line: callpeak -t SRX3671163.bam -f BAM -g 12100000 -n SRX3671163.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671163.20 # format = BAM # ChIP-seq file = ['SRX3671163.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 09:54:44: # Command line: callpeak -t SRX3671163.bam -f BAM -g 12100000 -n SRX3671163.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671163.10 # format = BAM # ChIP-seq file = ['SRX3671163.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 09:54:44: # Command line: callpeak -t SRX3671163.bam -f BAM -g 12100000 -n SRX3671163.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671163.05 # format = BAM # ChIP-seq file = ['SRX3671163.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 09:54:44: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:54:44: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:54:44: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:54:44: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:54:44: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:54:44: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:54:50: 1000000 INFO @ Thu, 05 Apr 2018 09:54:50: 1000000 INFO @ Thu, 05 Apr 2018 09:54:50: 1000000 INFO @ Thu, 05 Apr 2018 09:54:56: 2000000 INFO @ Thu, 05 Apr 2018 09:54:56: 2000000 INFO @ Thu, 05 Apr 2018 09:54:56: 2000000 INFO @ Thu, 05 Apr 2018 09:55:02: 3000000 INFO @ Thu, 05 Apr 2018 09:55:02: 3000000 INFO @ Thu, 05 Apr 2018 09:55:02: 3000000 INFO @ Thu, 05 Apr 2018 09:55:07: 4000000 INFO @ Thu, 05 Apr 2018 09:55:07: 4000000 INFO @ Thu, 05 Apr 2018 09:55:08: 4000000 INFO @ Thu, 05 Apr 2018 09:55:14: 5000000 INFO @ Thu, 05 Apr 2018 09:55:14: 5000000 INFO @ Thu, 05 Apr 2018 09:55:14: 5000000 INFO @ Thu, 05 Apr 2018 09:55:20: 6000000 INFO @ Thu, 05 Apr 2018 09:55:20: 6000000 INFO @ Thu, 05 Apr 2018 09:55:21: 6000000 INFO @ Thu, 05 Apr 2018 09:55:26: 7000000 INFO @ Thu, 05 Apr 2018 09:55:26: 7000000 INFO @ Thu, 05 Apr 2018 09:55:27: 7000000 INFO @ Thu, 05 Apr 2018 09:55:32: 8000000 INFO @ Thu, 05 Apr 2018 09:55:32: 8000000 INFO @ Thu, 05 Apr 2018 09:55:34: 8000000 INFO @ Thu, 05 Apr 2018 09:55:38: 9000000 INFO @ Thu, 05 Apr 2018 09:55:38: 9000000 INFO @ Thu, 05 Apr 2018 09:55:40: 9000000 INFO @ Thu, 05 Apr 2018 09:55:44: 10000000 INFO @ Thu, 05 Apr 2018 09:55:44: 10000000 INFO @ Thu, 05 Apr 2018 09:55:46: 10000000 INFO @ Thu, 05 Apr 2018 09:55:50: 11000000 INFO @ Thu, 05 Apr 2018 09:55:50: 11000000 INFO @ Thu, 05 Apr 2018 09:55:53: 11000000 INFO @ Thu, 05 Apr 2018 09:55:56: 12000000 INFO @ Thu, 05 Apr 2018 09:55:56: 12000000 INFO @ Thu, 05 Apr 2018 09:55:59: 12000000 INFO @ Thu, 05 Apr 2018 09:56:02: 13000000 INFO @ Thu, 05 Apr 2018 09:56:02: 13000000 INFO @ Thu, 05 Apr 2018 09:56:05: 13000000 INFO @ Thu, 05 Apr 2018 09:56:09: 14000000 INFO @ Thu, 05 Apr 2018 09:56:09: 14000000 INFO @ Thu, 05 Apr 2018 09:56:12: 14000000 INFO @ Thu, 05 Apr 2018 09:56:15: 15000000 INFO @ Thu, 05 Apr 2018 09:56:15: 15000000 INFO @ Thu, 05 Apr 2018 09:56:18: 15000000 INFO @ Thu, 05 Apr 2018 09:56:21: 16000000 INFO @ Thu, 05 Apr 2018 09:56:21: 16000000 INFO @ Thu, 05 Apr 2018 09:56:24: 16000000 INFO @ Thu, 05 Apr 2018 09:56:27: 17000000 INFO @ Thu, 05 Apr 2018 09:56:27: 17000000 INFO @ Thu, 05 Apr 2018 09:56:31: 17000000 INFO @ Thu, 05 Apr 2018 09:56:33: 18000000 INFO @ Thu, 05 Apr 2018 09:56:33: 18000000 INFO @ Thu, 05 Apr 2018 09:56:37: 18000000 INFO @ Thu, 05 Apr 2018 09:56:39: 19000000 INFO @ Thu, 05 Apr 2018 09:56:39: 19000000 INFO @ Thu, 05 Apr 2018 09:56:44: 19000000 INFO @ Thu, 05 Apr 2018 09:56:45: 20000000 INFO @ Thu, 05 Apr 2018 09:56:45: 20000000 INFO @ Thu, 05 Apr 2018 09:56:47: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:56:47: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:56:47: #1 total tags in treatment: 9913764 INFO @ Thu, 05 Apr 2018 09:56:47: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:56:47: #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 09:56:47: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:56:47: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:56:47: #1 total tags in treatment: 9913764 INFO @ Thu, 05 Apr 2018 09:56:47: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:56:47: #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 09:56:47: #1 tags after filtering in treatment: 7474284 INFO @ Thu, 05 Apr 2018 09:56:47: #1 Redundant rate of treatment: 0.25 INFO @ Thu, 05 Apr 2018 09:56:47: #1 finished! INFO @ Thu, 05 Apr 2018 09:56:47: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:56:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:56:47: #1 tags after filtering in treatment: 7474284 INFO @ Thu, 05 Apr 2018 09:56:47: #1 Redundant rate of treatment: 0.25 INFO @ Thu, 05 Apr 2018 09:56:47: #1 finished! INFO @ Thu, 05 Apr 2018 09:56:47: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:56:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:56:48: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:56:48: 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 @ Thu, 05 Apr 2018 09:56:48: Process for pairing-model is terminated! cat: SRX3671163.10_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 `SRX3671163.10_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 `SRX3671163.10_*.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 `SRX3671163.10_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 @ Thu, 05 Apr 2018 09:56:48: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:56:48: 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 @ Thu, 05 Apr 2018 09:56:48: Process for pairing-model is terminated! cat: SRX3671163.20_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 `SRX3671163.20_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 `SRX3671163.20_*.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 `SRX3671163.20_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 09:56:49: 20000000 INFO @ Thu, 05 Apr 2018 09:56:51: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:56:51: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:56:51: #1 total tags in treatment: 9913764 INFO @ Thu, 05 Apr 2018 09:56:51: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:56:51: #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 09:56:51: #1 tags after filtering in treatment: 7474284 INFO @ Thu, 05 Apr 2018 09:56:51: #1 Redundant rate of treatment: 0.25 INFO @ Thu, 05 Apr 2018 09:56:51: #1 finished! INFO @ Thu, 05 Apr 2018 09:56:51: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:56:51: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:56:52: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:56:52: 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, 05 Apr 2018 09:56:52: Process for pairing-model is terminated! cat: SRX3671163.05_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 `SRX3671163.05_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 `SRX3671163.05_*.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 `SRX3671163.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。