Job ID = 9161957 sra ファイルのダウンロード中... Completed: 611597K bytes transferred in 8 seconds (619129K 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 10618715 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423691/SRR2930980.sra Written 10618715 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: 00:08:15 10618715 reads; of these: 10618715 (100.00%) were paired; of these: 862548 (8.12%) aligned concordantly 0 times 8589701 (80.89%) aligned concordantly exactly 1 time 1166466 (10.99%) aligned concordantly >1 times ---- 862548 pairs aligned concordantly 0 times; of these: 12045 (1.40%) aligned discordantly 1 time ---- 850503 pairs aligned 0 times concordantly or discordantly; of these: 1701006 mates make up the pairs; of these: 1586025 (93.24%) aligned 0 times 93232 (5.48%) aligned exactly 1 time 21749 (1.28%) aligned >1 times 92.53% overall alignment rate Time searching: 00:08:15 Overall time: 00:08:15 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] 2690763 / 9757698 = 0.2758 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 05:18:08: # Command line: callpeak -t SRX1423691.bam -f BAM -g 12100000 -n SRX1423691.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423691.20 # format = BAM # ChIP-seq file = ['SRX1423691.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 05:18:08: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:18:08: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:18:08: # Command line: callpeak -t SRX1423691.bam -f BAM -g 12100000 -n SRX1423691.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423691.10 # format = BAM # ChIP-seq file = ['SRX1423691.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 05:18:08: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:18:08: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:18:08: # Command line: callpeak -t SRX1423691.bam -f BAM -g 12100000 -n SRX1423691.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423691.05 # format = BAM # ChIP-seq file = ['SRX1423691.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 05:18:08: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:18:08: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:18:15: 1000000 INFO @ Wed, 28 Jun 2017 05:18:15: 1000000 INFO @ Wed, 28 Jun 2017 05:18:15: 1000000 INFO @ Wed, 28 Jun 2017 05:18:22: 2000000 INFO @ Wed, 28 Jun 2017 05:18:22: 2000000 INFO @ Wed, 28 Jun 2017 05:18:22: 2000000 INFO @ Wed, 28 Jun 2017 05:18:29: 3000000 INFO @ Wed, 28 Jun 2017 05:18:29: 3000000 INFO @ Wed, 28 Jun 2017 05:18:29: 3000000 INFO @ Wed, 28 Jun 2017 05:18:36: 4000000 INFO @ Wed, 28 Jun 2017 05:18:36: 4000000 INFO @ Wed, 28 Jun 2017 05:18:36: 4000000 INFO @ Wed, 28 Jun 2017 05:18:42: 5000000 INFO @ Wed, 28 Jun 2017 05:18:42: 5000000 INFO @ Wed, 28 Jun 2017 05:18:42: 5000000 INFO @ Wed, 28 Jun 2017 05:18:49: 6000000 INFO @ Wed, 28 Jun 2017 05:18:49: 6000000 INFO @ Wed, 28 Jun 2017 05:18:49: 6000000 INFO @ Wed, 28 Jun 2017 05:18:56: 7000000 INFO @ Wed, 28 Jun 2017 05:18:56: 7000000 INFO @ Wed, 28 Jun 2017 05:18:56: 7000000 INFO @ Wed, 28 Jun 2017 05:19:03: 8000000 INFO @ Wed, 28 Jun 2017 05:19:03: 8000000 INFO @ Wed, 28 Jun 2017 05:19:03: 8000000 INFO @ Wed, 28 Jun 2017 05:19:10: 9000000 INFO @ Wed, 28 Jun 2017 05:19:10: 9000000 INFO @ Wed, 28 Jun 2017 05:19:10: 9000000 INFO @ Wed, 28 Jun 2017 05:19:16: 10000000 INFO @ Wed, 28 Jun 2017 05:19:16: 10000000 INFO @ Wed, 28 Jun 2017 05:19:16: 10000000 INFO @ Wed, 28 Jun 2017 05:19:23: 11000000 INFO @ Wed, 28 Jun 2017 05:19:23: 11000000 INFO @ Wed, 28 Jun 2017 05:19:23: 11000000 INFO @ Wed, 28 Jun 2017 05:19:30: 12000000 INFO @ Wed, 28 Jun 2017 05:19:30: 12000000 INFO @ Wed, 28 Jun 2017 05:19:30: 12000000 INFO @ Wed, 28 Jun 2017 05:19:37: 13000000 INFO @ Wed, 28 Jun 2017 05:19:37: 13000000 INFO @ Wed, 28 Jun 2017 05:19:37: 13000000 INFO @ Wed, 28 Jun 2017 05:19:44: 14000000 INFO @ Wed, 28 Jun 2017 05:19:44: 14000000 INFO @ Wed, 28 Jun 2017 05:19:44: 14000000 INFO @ Wed, 28 Jun 2017 05:19:46: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:19:46: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:19:46: #1 total tags in treatment: 7065617 INFO @ Wed, 28 Jun 2017 05:19:46: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:19:46: #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 05:19:46: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:19:46: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:19:46: #1 total tags in treatment: 7065617 INFO @ Wed, 28 Jun 2017 05:19:46: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:19:46: #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 05:19:46: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:19:46: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:19:46: #1 total tags in treatment: 7065617 INFO @ Wed, 28 Jun 2017 05:19:46: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:19:46: #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 05:19:46: #1 tags after filtering in treatment: 5703720 INFO @ Wed, 28 Jun 2017 05:19:46: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 28 Jun 2017 05:19:46: #1 finished! INFO @ Wed, 28 Jun 2017 05:19:46: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:19:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:19:46: #1 tags after filtering in treatment: 5703720 INFO @ Wed, 28 Jun 2017 05:19:46: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 28 Jun 2017 05:19:46: #1 finished! INFO @ Wed, 28 Jun 2017 05:19:46: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:19:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:19:46: #1 tags after filtering in treatment: 5703720 INFO @ Wed, 28 Jun 2017 05:19:46: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 28 Jun 2017 05:19:46: #1 finished! INFO @ Wed, 28 Jun 2017 05:19:46: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:19:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:19:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:19:46: 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 05:19:46: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 05:19:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:19:46: 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 05:19:46: Process for pairing-model is terminated! cat: SRX1423691.20_peaks.narrowPeakcat: SRX1423691.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません : 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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423691.05_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 `SRX1423691.20_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 `SRX1423691.05_*.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 `SRX1423691.20_*.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 `SRX1423691.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1423691.20_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 CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 05:19:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:19:46: 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 05:19:46: Process for pairing-model is terminated! cat: SRX1423691.10_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 `SRX1423691.10_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 `SRX1423691.10_*.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 `SRX1423691.10_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。