Job ID = 9162445 sra ファイルのダウンロード中... Completed: 549874K bytes transferred in 7 seconds (579145K 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 9376696 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2518698/SRR5204808.sra Written 9376696 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: 00:08:06 9376696 reads; of these: 9376696 (100.00%) were paired; of these: 210646 (2.25%) aligned concordantly 0 times 8174791 (87.18%) aligned concordantly exactly 1 time 991259 (10.57%) aligned concordantly >1 times ---- 210646 pairs aligned concordantly 0 times; of these: 3384 (1.61%) aligned discordantly 1 time ---- 207262 pairs aligned 0 times concordantly or discordantly; of these: 414524 mates make up the pairs; of these: 401515 (96.86%) aligned 0 times 9820 (2.37%) aligned exactly 1 time 3189 (0.77%) aligned >1 times 97.86% overall alignment rate Time searching: 00:08:06 Overall time: 00:08:06 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] 300974 / 9166670 = 0.0328 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 08:03:26: # Command line: callpeak -t SRX2518698.bam -f BAM -g 12100000 -n SRX2518698.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2518698.10 # format = BAM # ChIP-seq file = ['SRX2518698.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 08:03:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:03:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:03:26: # Command line: callpeak -t SRX2518698.bam -f BAM -g 12100000 -n SRX2518698.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2518698.05 # format = BAM # ChIP-seq file = ['SRX2518698.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 08:03:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:03:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:03:26: # Command line: callpeak -t SRX2518698.bam -f BAM -g 12100000 -n SRX2518698.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2518698.20 # format = BAM # ChIP-seq file = ['SRX2518698.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 08:03:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:03:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:03:34: 1000000 INFO @ Wed, 28 Jun 2017 08:03:34: 1000000 INFO @ Wed, 28 Jun 2017 08:03:35: 1000000 INFO @ Wed, 28 Jun 2017 08:03:42: 2000000 INFO @ Wed, 28 Jun 2017 08:03:42: 2000000 INFO @ Wed, 28 Jun 2017 08:03:43: 2000000 INFO @ Wed, 28 Jun 2017 08:03:49: 3000000 INFO @ Wed, 28 Jun 2017 08:03:49: 3000000 INFO @ Wed, 28 Jun 2017 08:03:49: 3000000 INFO @ Wed, 28 Jun 2017 08:03:55: 4000000 INFO @ Wed, 28 Jun 2017 08:03:56: 4000000 INFO @ Wed, 28 Jun 2017 08:03:56: 4000000 INFO @ Wed, 28 Jun 2017 08:04:02: 5000000 INFO @ Wed, 28 Jun 2017 08:04:02: 5000000 INFO @ Wed, 28 Jun 2017 08:04:02: 5000000 INFO @ Wed, 28 Jun 2017 08:04:08: 6000000 INFO @ Wed, 28 Jun 2017 08:04:08: 6000000 INFO @ Wed, 28 Jun 2017 08:04:09: 6000000 INFO @ Wed, 28 Jun 2017 08:04:15: 7000000 INFO @ Wed, 28 Jun 2017 08:04:15: 7000000 INFO @ Wed, 28 Jun 2017 08:04:15: 7000000 INFO @ Wed, 28 Jun 2017 08:04:21: 8000000 INFO @ Wed, 28 Jun 2017 08:04:21: 8000000 INFO @ Wed, 28 Jun 2017 08:04:22: 8000000 INFO @ Wed, 28 Jun 2017 08:04:28: 9000000 INFO @ Wed, 28 Jun 2017 08:04:28: 9000000 INFO @ Wed, 28 Jun 2017 08:04:29: 9000000 INFO @ Wed, 28 Jun 2017 08:04:35: 10000000 INFO @ Wed, 28 Jun 2017 08:04:35: 10000000 INFO @ Wed, 28 Jun 2017 08:04:36: 10000000 INFO @ Wed, 28 Jun 2017 08:04:42: 11000000 INFO @ Wed, 28 Jun 2017 08:04:42: 11000000 INFO @ Wed, 28 Jun 2017 08:04:43: 11000000 INFO @ Wed, 28 Jun 2017 08:04:48: 12000000 INFO @ Wed, 28 Jun 2017 08:04:48: 12000000 INFO @ Wed, 28 Jun 2017 08:04:49: 12000000 INFO @ Wed, 28 Jun 2017 08:04:54: 13000000 INFO @ Wed, 28 Jun 2017 08:04:55: 13000000 INFO @ Wed, 28 Jun 2017 08:04:56: 13000000 INFO @ Wed, 28 Jun 2017 08:05:00: 14000000 INFO @ Wed, 28 Jun 2017 08:05:01: 14000000 INFO @ Wed, 28 Jun 2017 08:05:03: 14000000 INFO @ Wed, 28 Jun 2017 08:05:06: 15000000 INFO @ Wed, 28 Jun 2017 08:05:08: 15000000 INFO @ Wed, 28 Jun 2017 08:05:09: 15000000 INFO @ Wed, 28 Jun 2017 08:05:11: 16000000 INFO @ Wed, 28 Jun 2017 08:05:14: 16000000 INFO @ Wed, 28 Jun 2017 08:05:15: 16000000 INFO @ Wed, 28 Jun 2017 08:05:17: 17000000 INFO @ Wed, 28 Jun 2017 08:05:21: 17000000 INFO @ Wed, 28 Jun 2017 08:05:21: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:05:21: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:05:21: #1 total tags in treatment: 8865086 INFO @ Wed, 28 Jun 2017 08:05:21: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:21: #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 08:05:22: #1 tags after filtering in treatment: 5651817 INFO @ Wed, 28 Jun 2017 08:05:22: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 28 Jun 2017 08:05:22: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:22: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:22: 17000000 INFO @ Wed, 28 Jun 2017 08:05:22: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:22: 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 08:05:22: Process for pairing-model is terminated! cat: SRX2518698.05_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 `SRX2518698.05_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 `SRX2518698.05_*.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 `SRX2518698.05_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 08:05:26: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:05:26: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:05:26: #1 total tags in treatment: 8865086 INFO @ Wed, 28 Jun 2017 08:05:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:26: #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 08:05:26: #1 tags after filtering in treatment: 5651817 INFO @ Wed, 28 Jun 2017 08:05:26: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 28 Jun 2017 08:05:26: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:26: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:26: 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 08:05:26: Process for pairing-model is terminated! cat: SRX2518698.10_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 `SRX2518698.10_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 `SRX2518698.10_*.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 `SRX2518698.10_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 @ Wed, 28 Jun 2017 08:05:27: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:05:27: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:05:27: #1 total tags in treatment: 8865086 INFO @ Wed, 28 Jun 2017 08:05:27: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:27: #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 08:05:27: #1 tags after filtering in treatment: 5651817 INFO @ Wed, 28 Jun 2017 08:05:27: #1 Redundant rate of treatment: 0.36 INFO @ Wed, 28 Jun 2017 08:05:27: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:27: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:27: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:27: 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 08:05:27: Process for pairing-model is terminated! cat: SRX2518698.20_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 `SRX2518698.20_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 `SRX2518698.20_*.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 `SRX2518698.20_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。