Job ID = 10536428 sra ファイルのダウンロード中... Completed: 436454K bytes transferred in 18 seconds (194241K 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 13807510 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671161/SRR6696913.sra Written 13807510 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: 00:10:43 13807510 reads; of these: 13807510 (100.00%) were paired; of these: 916612 (6.64%) aligned concordantly 0 times 11358760 (82.27%) aligned concordantly exactly 1 time 1532138 (11.10%) aligned concordantly >1 times ---- 916612 pairs aligned concordantly 0 times; of these: 35668 (3.89%) aligned discordantly 1 time ---- 880944 pairs aligned 0 times concordantly or discordantly; of these: 1761888 mates make up the pairs; of these: 1703224 (96.67%) aligned 0 times 37393 (2.12%) aligned exactly 1 time 21271 (1.21%) aligned >1 times 93.83% overall alignment rate Time searching: 00:10:43 Overall time: 00:10:43 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 12 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] 4533153 / 12897622 = 0.3515 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 09:41:23: # Command line: callpeak -t SRX3671161.bam -f BAM -g 12100000 -n SRX3671161.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671161.10 # format = BAM # ChIP-seq file = ['SRX3671161.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 09:41:23: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:41:23: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:41:23: # Command line: callpeak -t SRX3671161.bam -f BAM -g 12100000 -n SRX3671161.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671161.05 # format = BAM # ChIP-seq file = ['SRX3671161.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 09:41:23: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:41:23: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:41:23: # Command line: callpeak -t SRX3671161.bam -f BAM -g 12100000 -n SRX3671161.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671161.20 # format = BAM # ChIP-seq file = ['SRX3671161.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 09:41:23: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:41:23: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:41:29: 1000000 INFO @ Thu, 05 Apr 2018 09:41:29: 1000000 INFO @ Thu, 05 Apr 2018 09:41:29: 1000000 INFO @ Thu, 05 Apr 2018 09:41:34: 2000000 INFO @ Thu, 05 Apr 2018 09:41:34: 2000000 INFO @ Thu, 05 Apr 2018 09:41:34: 2000000 INFO @ Thu, 05 Apr 2018 09:41:39: 3000000 INFO @ Thu, 05 Apr 2018 09:41:40: 3000000 INFO @ Thu, 05 Apr 2018 09:41:41: 3000000 INFO @ Thu, 05 Apr 2018 09:41:44: 4000000 INFO @ Thu, 05 Apr 2018 09:41:46: 4000000 INFO @ Thu, 05 Apr 2018 09:41:48: 4000000 INFO @ Thu, 05 Apr 2018 09:41:49: 5000000 INFO @ Thu, 05 Apr 2018 09:41:53: 5000000 INFO @ Thu, 05 Apr 2018 09:41:55: 6000000 INFO @ Thu, 05 Apr 2018 09:41:55: 5000000 INFO @ Thu, 05 Apr 2018 09:41:59: 6000000 INFO @ Thu, 05 Apr 2018 09:42:00: 7000000 INFO @ Thu, 05 Apr 2018 09:42:02: 6000000 INFO @ Thu, 05 Apr 2018 09:42:05: 8000000 INFO @ Thu, 05 Apr 2018 09:42:06: 7000000 INFO @ Thu, 05 Apr 2018 09:42:09: 7000000 INFO @ Thu, 05 Apr 2018 09:42:10: 9000000 INFO @ Thu, 05 Apr 2018 09:42:12: 8000000 INFO @ Thu, 05 Apr 2018 09:42:15: 10000000 INFO @ Thu, 05 Apr 2018 09:42:16: 8000000 INFO @ Thu, 05 Apr 2018 09:42:18: 9000000 INFO @ Thu, 05 Apr 2018 09:42:20: 11000000 INFO @ Thu, 05 Apr 2018 09:42:23: 9000000 INFO @ Thu, 05 Apr 2018 09:42:24: 10000000 INFO @ Thu, 05 Apr 2018 09:42:25: 12000000 INFO @ Thu, 05 Apr 2018 09:42:30: 13000000 INFO @ Thu, 05 Apr 2018 09:42:31: 10000000 INFO @ Thu, 05 Apr 2018 09:42:31: 11000000 INFO @ Thu, 05 Apr 2018 09:42:35: 14000000 INFO @ Thu, 05 Apr 2018 09:42:37: 12000000 INFO @ Thu, 05 Apr 2018 09:42:37: 11000000 INFO @ Thu, 05 Apr 2018 09:42:40: 15000000 INFO @ Thu, 05 Apr 2018 09:42:43: 13000000 INFO @ Thu, 05 Apr 2018 09:42:45: 12000000 INFO @ Thu, 05 Apr 2018 09:42:45: 16000000 INFO @ Thu, 05 Apr 2018 09:42:50: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:42:50: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:42:50: #1 total tags in treatment: 8359041 INFO @ Thu, 05 Apr 2018 09:42:50: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:42:50: #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 09:42:50: 14000000 INFO @ Thu, 05 Apr 2018 09:42:50: #1 tags after filtering in treatment: 6607312 INFO @ Thu, 05 Apr 2018 09:42:50: #1 Redundant rate of treatment: 0.21 INFO @ Thu, 05 Apr 2018 09:42:50: #1 finished! INFO @ Thu, 05 Apr 2018 09:42:50: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:42:50: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:42:50: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:42:50: 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 09:42:50: Process for pairing-model is terminated! cat: SRX3671161.10_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 `SRX3671161.10_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 `SRX3671161.10_*.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 `SRX3671161.10_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 09:42:52: 13000000 INFO @ Thu, 05 Apr 2018 09:42:56: 15000000 INFO @ Thu, 05 Apr 2018 09:42:59: 14000000 INFO @ Thu, 05 Apr 2018 09:43:02: 16000000 INFO @ Thu, 05 Apr 2018 09:43:06: 15000000 INFO @ Thu, 05 Apr 2018 09:43:08: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:43:08: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:43:08: #1 total tags in treatment: 8359041 INFO @ Thu, 05 Apr 2018 09:43:08: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:43:08: #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 09:43:08: #1 tags after filtering in treatment: 6607312 INFO @ Thu, 05 Apr 2018 09:43:08: #1 Redundant rate of treatment: 0.21 INFO @ Thu, 05 Apr 2018 09:43:08: #1 finished! INFO @ Thu, 05 Apr 2018 09:43:08: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:43:08: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:43:08: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:43:08: 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 09:43:08: Process for pairing-model is terminated! cat: SRX3671161.20_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 `SRX3671161.20_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 `SRX3671161.20_*.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 `SRX3671161.20_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 09:43:12: 16000000 INFO @ Thu, 05 Apr 2018 09:43:17: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:43:17: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:43:17: #1 total tags in treatment: 8359041 INFO @ Thu, 05 Apr 2018 09:43:17: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:43:17: #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 09:43:17: #1 tags after filtering in treatment: 6607312 INFO @ Thu, 05 Apr 2018 09:43:17: #1 Redundant rate of treatment: 0.21 INFO @ Thu, 05 Apr 2018 09:43:17: #1 finished! INFO @ Thu, 05 Apr 2018 09:43:17: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:43:17: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:43:17: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:43:17: 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 09:43:17: Process for pairing-model is terminated! cat: SRX3671161.05_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 `SRX3671161.05_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 `SRX3671161.05_*.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 `SRX3671161.05_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。