Job ID = 9160019 sra ファイルのダウンロード中... Completed: 749133K bytes transferred in 10 seconds (590650K bits/sec), in 1 file, 2 directories. 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 7624775 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2402744/SRR5085189.sra Written 7624775 spots total 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: 00:08:28 7624775 reads; of these: 7624775 (100.00%) were paired; of these: 226340 (2.97%) aligned concordantly 0 times 6696084 (87.82%) aligned concordantly exactly 1 time 702351 (9.21%) aligned concordantly >1 times ---- 226340 pairs aligned concordantly 0 times; of these: 37511 (16.57%) aligned discordantly 1 time ---- 188829 pairs aligned 0 times concordantly or discordantly; of these: 377658 mates make up the pairs; of these: 250317 (66.28%) aligned 0 times 108865 (28.83%) aligned exactly 1 time 18476 (4.89%) aligned >1 times 98.36% overall alignment rate Time searching: 00:08:28 Overall time: 00:08:28 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_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] 79298 / 7430302 = 0.0107 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 @ Wed, 28 Jun 2017 01:54:23: # Command line: callpeak -t SRX2402744.bam -f BAM -g 12100000 -n SRX2402744.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2402744.05 # format = BAM # ChIP-seq file = ['SRX2402744.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 @ Wed, 28 Jun 2017 01:54:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:54:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:54:23: # Command line: callpeak -t SRX2402744.bam -f BAM -g 12100000 -n SRX2402744.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2402744.10 # format = BAM # ChIP-seq file = ['SRX2402744.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 @ Wed, 28 Jun 2017 01:54:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:54:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:54:23: # Command line: callpeak -t SRX2402744.bam -f BAM -g 12100000 -n SRX2402744.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2402744.20 # format = BAM # ChIP-seq file = ['SRX2402744.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 @ Wed, 28 Jun 2017 01:54:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:54:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:54:30: 1000000 INFO @ Wed, 28 Jun 2017 01:54:31: 1000000 INFO @ Wed, 28 Jun 2017 01:54:31: 1000000 INFO @ Wed, 28 Jun 2017 01:54:40: 2000000 INFO @ Wed, 28 Jun 2017 01:54:40: 2000000 INFO @ Wed, 28 Jun 2017 01:54:40: 2000000 INFO @ Wed, 28 Jun 2017 01:54:49: 3000000 INFO @ Wed, 28 Jun 2017 01:54:49: 3000000 INFO @ Wed, 28 Jun 2017 01:54:49: 3000000 INFO @ Wed, 28 Jun 2017 01:54:58: 4000000 INFO @ Wed, 28 Jun 2017 01:54:58: 4000000 INFO @ Wed, 28 Jun 2017 01:54:58: 4000000 INFO @ Wed, 28 Jun 2017 01:55:07: 5000000 INFO @ Wed, 28 Jun 2017 01:55:07: 5000000 INFO @ Wed, 28 Jun 2017 01:55:07: 5000000 INFO @ Wed, 28 Jun 2017 01:55:16: 6000000 INFO @ Wed, 28 Jun 2017 01:55:16: 6000000 INFO @ Wed, 28 Jun 2017 01:55:16: 6000000 INFO @ Wed, 28 Jun 2017 01:55:25: 7000000 INFO @ Wed, 28 Jun 2017 01:55:25: 7000000 INFO @ Wed, 28 Jun 2017 01:55:26: 7000000 INFO @ Wed, 28 Jun 2017 01:55:34: 8000000 INFO @ Wed, 28 Jun 2017 01:55:34: 8000000 INFO @ Wed, 28 Jun 2017 01:55:36: 8000000 INFO @ Wed, 28 Jun 2017 01:55:43: 9000000 INFO @ Wed, 28 Jun 2017 01:55:43: 9000000 INFO @ Wed, 28 Jun 2017 01:55:45: 9000000 INFO @ Wed, 28 Jun 2017 01:55:52: 10000000 INFO @ Wed, 28 Jun 2017 01:55:52: 10000000 INFO @ Wed, 28 Jun 2017 01:55:55: 10000000 INFO @ Wed, 28 Jun 2017 01:56:01: 11000000 INFO @ Wed, 28 Jun 2017 01:56:01: 11000000 INFO @ Wed, 28 Jun 2017 01:56:05: 11000000 INFO @ Wed, 28 Jun 2017 01:56:10: 12000000 INFO @ Wed, 28 Jun 2017 01:56:10: 12000000 INFO @ Wed, 28 Jun 2017 01:56:14: 12000000 INFO @ Wed, 28 Jun 2017 01:56:18: 13000000 INFO @ Wed, 28 Jun 2017 01:56:18: 13000000 INFO @ Wed, 28 Jun 2017 01:56:23: 13000000 INFO @ Wed, 28 Jun 2017 01:56:26: 14000000 INFO @ Wed, 28 Jun 2017 01:56:26: 14000000 INFO @ Wed, 28 Jun 2017 01:56:32: 14000000 INFO @ Wed, 28 Jun 2017 01:56:32: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:56:32: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:56:32: #1 total tags in treatment: 7319264 INFO @ Wed, 28 Jun 2017 01:56:32: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:56:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 01:56:32: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:56:32: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:56:32: #1 total tags in treatment: 7319264 INFO @ Wed, 28 Jun 2017 01:56:32: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:56:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 01:56:33: #1 tags after filtering in treatment: 5139601 INFO @ Wed, 28 Jun 2017 01:56:33: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 01:56:33: #1 finished! INFO @ Wed, 28 Jun 2017 01:56:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:56:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:56:33: #1 tags after filtering in treatment: 5139601 INFO @ Wed, 28 Jun 2017 01:56:33: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 01:56:33: #1 finished! INFO @ Wed, 28 Jun 2017 01:56:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:56:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:56:33: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:56:33: 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 @ Wed, 28 Jun 2017 01:56:33: Process for pairing-model is terminated! cat: SRX2402744.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 01:56:33: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:56:33: 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 @ Wed, 28 Jun 2017 01:56:33: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2402744.10_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 `SRX2402744.10_*.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 `SRX2402744.10_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 cat: SRX2402744.05_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 `SRX2402744.05_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 `SRX2402744.05_*.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 `SRX2402744.05_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 @ Wed, 28 Jun 2017 01:56:38: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:56:38: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:56:38: #1 total tags in treatment: 7319264 INFO @ Wed, 28 Jun 2017 01:56:38: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:56:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 01:56:38: #1 tags after filtering in treatment: 5139601 INFO @ Wed, 28 Jun 2017 01:56:38: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 01:56:38: #1 finished! INFO @ Wed, 28 Jun 2017 01:56:38: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:56:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:56:38: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 01:56:38: 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 @ Wed, 28 Jun 2017 01:56:38: Process for pairing-model is terminated! cat: SRX2402744.20_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 `SRX2402744.20_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 `SRX2402744.20_*.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 `SRX2402744.20_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。