Job ID = 9161979 sra ファイルのダウンロード中... Completed: 1413967K bytes transferred in 15 seconds (755514K 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 23003834 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423711/SRR2931000.sra Written 23003834 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: 00:12:05 23003834 reads; of these: 23003834 (100.00%) were paired; of these: 10774293 (46.84%) aligned concordantly 0 times 11308127 (49.16%) aligned concordantly exactly 1 time 921414 (4.01%) aligned concordantly >1 times ---- 10774293 pairs aligned concordantly 0 times; of these: 181784 (1.69%) aligned discordantly 1 time ---- 10592509 pairs aligned 0 times concordantly or discordantly; of these: 21185018 mates make up the pairs; of these: 20791893 (98.14%) aligned 0 times 318639 (1.50%) aligned exactly 1 time 74486 (0.35%) aligned >1 times 54.81% overall alignment rate Time searching: 00:12:05 Overall time: 00:12:05 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] 3761282 / 12396949 = 0.3034 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 05:30:10: # Command line: callpeak -t SRX1423711.bam -f BAM -g 12100000 -n SRX1423711.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423711.05 # format = BAM # ChIP-seq file = ['SRX1423711.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 05:30:10: # Command line: callpeak -t SRX1423711.bam -f BAM -g 12100000 -n SRX1423711.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423711.10 # format = BAM # ChIP-seq file = ['SRX1423711.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 05:30:10: # Command line: callpeak -t SRX1423711.bam -f BAM -g 12100000 -n SRX1423711.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423711.20 # format = BAM # ChIP-seq file = ['SRX1423711.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 05:30:10: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:30:10: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:30:10: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:30:10: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:30:10: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:30:10: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:30:16: 1000000 INFO @ Wed, 28 Jun 2017 05:30:16: 1000000 INFO @ Wed, 28 Jun 2017 05:30:16: 1000000 INFO @ Wed, 28 Jun 2017 05:30:22: 2000000 INFO @ Wed, 28 Jun 2017 05:30:22: 2000000 INFO @ Wed, 28 Jun 2017 05:30:22: 2000000 INFO @ Wed, 28 Jun 2017 05:30:28: 3000000 INFO @ Wed, 28 Jun 2017 05:30:28: 3000000 INFO @ Wed, 28 Jun 2017 05:30:28: 3000000 INFO @ Wed, 28 Jun 2017 05:30:34: 4000000 INFO @ Wed, 28 Jun 2017 05:30:34: 4000000 INFO @ Wed, 28 Jun 2017 05:30:34: 4000000 INFO @ Wed, 28 Jun 2017 05:30:40: 5000000 INFO @ Wed, 28 Jun 2017 05:30:40: 5000000 INFO @ Wed, 28 Jun 2017 05:30:40: 5000000 INFO @ Wed, 28 Jun 2017 05:30:46: 6000000 INFO @ Wed, 28 Jun 2017 05:30:46: 6000000 INFO @ Wed, 28 Jun 2017 05:30:46: 6000000 INFO @ Wed, 28 Jun 2017 05:30:52: 7000000 INFO @ Wed, 28 Jun 2017 05:30:53: 7000000 INFO @ Wed, 28 Jun 2017 05:30:53: 7000000 INFO @ Wed, 28 Jun 2017 05:30:58: 8000000 INFO @ Wed, 28 Jun 2017 05:30:58: 8000000 INFO @ Wed, 28 Jun 2017 05:30:58: 8000000 INFO @ Wed, 28 Jun 2017 05:31:04: 9000000 INFO @ Wed, 28 Jun 2017 05:31:04: 9000000 INFO @ Wed, 28 Jun 2017 05:31:04: 9000000 INFO @ Wed, 28 Jun 2017 05:31:10: 10000000 INFO @ Wed, 28 Jun 2017 05:31:11: 10000000 INFO @ Wed, 28 Jun 2017 05:31:11: 10000000 INFO @ Wed, 28 Jun 2017 05:31:16: 11000000 INFO @ Wed, 28 Jun 2017 05:31:17: 11000000 INFO @ Wed, 28 Jun 2017 05:31:17: 11000000 INFO @ Wed, 28 Jun 2017 05:31:22: 12000000 INFO @ Wed, 28 Jun 2017 05:31:23: 12000000 INFO @ Wed, 28 Jun 2017 05:31:23: 12000000 INFO @ Wed, 28 Jun 2017 05:31:29: 13000000 INFO @ Wed, 28 Jun 2017 05:31:29: 13000000 INFO @ Wed, 28 Jun 2017 05:31:29: 13000000 INFO @ Wed, 28 Jun 2017 05:31:35: 14000000 INFO @ Wed, 28 Jun 2017 05:31:35: 14000000 INFO @ Wed, 28 Jun 2017 05:31:35: 14000000 INFO @ Wed, 28 Jun 2017 05:31:40: 15000000 INFO @ Wed, 28 Jun 2017 05:31:41: 15000000 INFO @ Wed, 28 Jun 2017 05:31:41: 15000000 INFO @ Wed, 28 Jun 2017 05:31:46: 16000000 INFO @ Wed, 28 Jun 2017 05:31:47: 16000000 INFO @ Wed, 28 Jun 2017 05:31:47: 16000000 INFO @ Wed, 28 Jun 2017 05:31:52: 17000000 INFO @ Wed, 28 Jun 2017 05:31:53: 17000000 INFO @ Wed, 28 Jun 2017 05:31:53: 17000000 INFO @ Wed, 28 Jun 2017 05:31:56: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:31:56: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:31:56: #1 total tags in treatment: 8486926 INFO @ Wed, 28 Jun 2017 05:31:56: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:31:56: #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 05:31:57: #1 tags after filtering in treatment: 6054913 INFO @ Wed, 28 Jun 2017 05:31:57: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 28 Jun 2017 05:31:57: #1 finished! INFO @ Wed, 28 Jun 2017 05:31:57: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:31:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:31:57: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:31:57: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:31:57: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:31:57: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:31:57: #1 total tags in treatment: 8486926 INFO @ Wed, 28 Jun 2017 05:31:57: #1 total tags in treatment: 8486926 INFO @ Wed, 28 Jun 2017 05:31:57: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:31:57: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:31:57: #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 05:31:57: #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 05:31:57: #1 tags after filtering in treatment: 6054913 INFO @ Wed, 28 Jun 2017 05:31:57: #1 tags after filtering in treatment: 6054913 INFO @ Wed, 28 Jun 2017 05:31:57: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 28 Jun 2017 05:31:57: #1 Redundant rate of treatment: 0.29 INFO @ Wed, 28 Jun 2017 05:31:57: #1 finished! INFO @ Wed, 28 Jun 2017 05:31:57: #1 finished! INFO @ Wed, 28 Jun 2017 05:31:57: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:31:57: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:31:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:31:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:31:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:31:57: 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 05:31:57: Process for pairing-model is terminated! cat: SRX1423711.05_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 `SRX1423711.05_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 `SRX1423711.05_*.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 `SRX1423711.05_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 05:31:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:31:57: 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 05:31:57: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 05:31:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:31:57: 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 05:31:57: Process for pairing-model is terminated! cat: SRX1423711.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1423711.20_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) pass1 - making usageList (0 chroms): 2 millis rm: cannot remove `SRX1423711.10_model.r': そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423711.10_*.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 `SRX1423711.10_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 rm: cannot remove `SRX1423711.20_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 `SRX1423711.20_*.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 `SRX1423711.20_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。