Job ID = 9161947 sra ファイルのダウンロード中... Completed: 1528020K bytes transferred in 16 seconds (776081K 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 27288850 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423681/SRR2930970.sra Written 27288850 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: 00:10:10 27288850 reads; of these: 27288850 (100.00%) were paired; of these: 16643171 (60.99%) aligned concordantly 0 times 9405651 (34.47%) aligned concordantly exactly 1 time 1240028 (4.54%) aligned concordantly >1 times ---- 16643171 pairs aligned concordantly 0 times; of these: 47484 (0.29%) aligned discordantly 1 time ---- 16595687 pairs aligned 0 times concordantly or discordantly; of these: 33191374 mates make up the pairs; of these: 32947744 (99.27%) aligned 0 times 195398 (0.59%) aligned exactly 1 time 48232 (0.15%) aligned >1 times 39.63% overall alignment rate Time searching: 00:10:10 Overall time: 00:10:10 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] 3161276 / 10681493 = 0.2960 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 05:20:29: # Command line: callpeak -t SRX1423681.bam -f BAM -g 12100000 -n SRX1423681.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423681.20 # format = BAM # ChIP-seq file = ['SRX1423681.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 05:20:29: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:20:29: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:20:29: # Command line: callpeak -t SRX1423681.bam -f BAM -g 12100000 -n SRX1423681.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423681.05 # format = BAM # ChIP-seq file = ['SRX1423681.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 05:20:29: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:20:29: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:20:29: # Command line: callpeak -t SRX1423681.bam -f BAM -g 12100000 -n SRX1423681.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423681.10 # format = BAM # ChIP-seq file = ['SRX1423681.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 05:20:29: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:20:29: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:20:35: 1000000 INFO @ Wed, 28 Jun 2017 05:20:37: 1000000 INFO @ Wed, 28 Jun 2017 05:20:37: 1000000 INFO @ Wed, 28 Jun 2017 05:20:41: 2000000 INFO @ Wed, 28 Jun 2017 05:20:45: 2000000 INFO @ Wed, 28 Jun 2017 05:20:45: 2000000 INFO @ Wed, 28 Jun 2017 05:20:47: 3000000 INFO @ Wed, 28 Jun 2017 05:20:53: 4000000 INFO @ Wed, 28 Jun 2017 05:20:53: 3000000 INFO @ Wed, 28 Jun 2017 05:20:53: 3000000 INFO @ Wed, 28 Jun 2017 05:20:59: 5000000 INFO @ Wed, 28 Jun 2017 05:21:01: 4000000 INFO @ Wed, 28 Jun 2017 05:21:01: 4000000 INFO @ Wed, 28 Jun 2017 05:21:05: 6000000 INFO @ Wed, 28 Jun 2017 05:21:09: 5000000 INFO @ Wed, 28 Jun 2017 05:21:09: 5000000 INFO @ Wed, 28 Jun 2017 05:21:11: 7000000 INFO @ Wed, 28 Jun 2017 05:21:17: 8000000 INFO @ Wed, 28 Jun 2017 05:21:17: 6000000 INFO @ Wed, 28 Jun 2017 05:21:17: 6000000 INFO @ Wed, 28 Jun 2017 05:21:23: 9000000 INFO @ Wed, 28 Jun 2017 05:21:25: 7000000 INFO @ Wed, 28 Jun 2017 05:21:25: 7000000 INFO @ Wed, 28 Jun 2017 05:21:29: 10000000 INFO @ Wed, 28 Jun 2017 05:21:33: 8000000 INFO @ Wed, 28 Jun 2017 05:21:33: 8000000 INFO @ Wed, 28 Jun 2017 05:21:35: 11000000 INFO @ Wed, 28 Jun 2017 05:21:41: 12000000 INFO @ Wed, 28 Jun 2017 05:21:41: 9000000 INFO @ Wed, 28 Jun 2017 05:21:41: 9000000 INFO @ Wed, 28 Jun 2017 05:21:47: 13000000 INFO @ Wed, 28 Jun 2017 05:21:49: 10000000 INFO @ Wed, 28 Jun 2017 05:21:49: 10000000 INFO @ Wed, 28 Jun 2017 05:21:53: 14000000 INFO @ Wed, 28 Jun 2017 05:21:55: 11000000 INFO @ Wed, 28 Jun 2017 05:21:55: 11000000 INFO @ Wed, 28 Jun 2017 05:21:59: 15000000 INFO @ Wed, 28 Jun 2017 05:22:00: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:22:00: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:22:00: #1 total tags in treatment: 7489636 INFO @ Wed, 28 Jun 2017 05:22:00: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:22:00: #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 05:22:01: #1 tags after filtering in treatment: 5938806 INFO @ Wed, 28 Jun 2017 05:22:01: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 28 Jun 2017 05:22:01: #1 finished! INFO @ Wed, 28 Jun 2017 05:22:01: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:22:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:22:01: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:22:01: 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 05:22:01: Process for pairing-model is terminated! cat: SRX1423681.20_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 `SRX1423681.20_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 `SRX1423681.20_*.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 `SRX1423681.20_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 @ Wed, 28 Jun 2017 05:22:01: 12000000 INFO @ Wed, 28 Jun 2017 05:22:01: 12000000 INFO @ Wed, 28 Jun 2017 05:22:08: 13000000 INFO @ Wed, 28 Jun 2017 05:22:08: 13000000 INFO @ Wed, 28 Jun 2017 05:22:14: 14000000 INFO @ Wed, 28 Jun 2017 05:22:14: 14000000 INFO @ Wed, 28 Jun 2017 05:22:20: 15000000 INFO @ Wed, 28 Jun 2017 05:22:20: 15000000 INFO @ Wed, 28 Jun 2017 05:22:22: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:22:22: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:22:22: #1 total tags in treatment: 7489636 INFO @ Wed, 28 Jun 2017 05:22:22: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:22:22: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:22:22: #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 05:22:22: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:22:22: #1 total tags in treatment: 7489636 INFO @ Wed, 28 Jun 2017 05:22:22: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:22:22: #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 05:22:22: #1 tags after filtering in treatment: 5938806 INFO @ Wed, 28 Jun 2017 05:22:22: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 28 Jun 2017 05:22:22: #1 finished! INFO @ Wed, 28 Jun 2017 05:22:22: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:22:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:22:22: #1 tags after filtering in treatment: 5938806 INFO @ Wed, 28 Jun 2017 05:22:22: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 28 Jun 2017 05:22:22: #1 finished! INFO @ Wed, 28 Jun 2017 05:22:22: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:22:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:22:22: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:22:22: 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 05:22:22: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 05:22:22: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:22:22: 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 05:22:22: Process for pairing-model is terminated! cat: SRX1423681.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1423681.10_peaks.narrowPeakpass1 - making usageList (0 chroms): 1 millis : そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423681.05_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 `SRX1423681.05_*.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 `SRX1423681.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423681.10_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 `SRX1423681.10_*.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 `SRX1423681.10_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。