Job ID = 9163661 sra ファイルのダウンロード中... Completed: 1023404K bytes transferred in 12 seconds (667611K 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 10334929 spots for /home/okishinya/chipatlas/results/sacCer3/SRX997176/SRR1976208.sra Written 10334929 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: 00:10:55 10334929 reads; of these: 10334929 (100.00%) were paired; of these: 1256691 (12.16%) aligned concordantly 0 times 3222067 (31.18%) aligned concordantly exactly 1 time 5856171 (56.66%) aligned concordantly >1 times ---- 1256691 pairs aligned concordantly 0 times; of these: 111037 (8.84%) aligned discordantly 1 time ---- 1145654 pairs aligned 0 times concordantly or discordantly; of these: 2291308 mates make up the pairs; of these: 1686305 (73.60%) aligned 0 times 175802 (7.67%) aligned exactly 1 time 429201 (18.73%) aligned >1 times 91.84% overall alignment rate Time searching: 00:10:55 Overall time: 00:10:55 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] 5243346 / 9161721 = 0.5723 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 11:29:13: # Command line: callpeak -t SRX997176.bam -f BAM -g 12100000 -n SRX997176.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX997176.20 # format = BAM # ChIP-seq file = ['SRX997176.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 11:29:13: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:29:13: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:29:13: # Command line: callpeak -t SRX997176.bam -f BAM -g 12100000 -n SRX997176.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX997176.05 # format = BAM # ChIP-seq file = ['SRX997176.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 11:29:13: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:29:13: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:29:13: # Command line: callpeak -t SRX997176.bam -f BAM -g 12100000 -n SRX997176.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX997176.10 # format = BAM # ChIP-seq file = ['SRX997176.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 11:29:13: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:29:13: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:29:19: 1000000 INFO @ Wed, 28 Jun 2017 11:29:19: 1000000 INFO @ Wed, 28 Jun 2017 11:29:19: 1000000 INFO @ Wed, 28 Jun 2017 11:29:25: 2000000 INFO @ Wed, 28 Jun 2017 11:29:26: 2000000 INFO @ Wed, 28 Jun 2017 11:29:26: 2000000 INFO @ Wed, 28 Jun 2017 11:29:32: 3000000 INFO @ Wed, 28 Jun 2017 11:29:32: 3000000 INFO @ Wed, 28 Jun 2017 11:29:32: 3000000 INFO @ Wed, 28 Jun 2017 11:29:38: 4000000 INFO @ Wed, 28 Jun 2017 11:29:39: 4000000 INFO @ Wed, 28 Jun 2017 11:29:39: 4000000 INFO @ Wed, 28 Jun 2017 11:29:44: 5000000 INFO @ Wed, 28 Jun 2017 11:29:44: 5000000 INFO @ Wed, 28 Jun 2017 11:29:45: 5000000 INFO @ Wed, 28 Jun 2017 11:29:50: 6000000 INFO @ Wed, 28 Jun 2017 11:29:50: 6000000 INFO @ Wed, 28 Jun 2017 11:29:51: 6000000 INFO @ Wed, 28 Jun 2017 11:29:56: 7000000 INFO @ Wed, 28 Jun 2017 11:29:56: 7000000 INFO @ Wed, 28 Jun 2017 11:29:57: 7000000 INFO @ Wed, 28 Jun 2017 11:30:02: 8000000 INFO @ Wed, 28 Jun 2017 11:30:02: 8000000 INFO @ Wed, 28 Jun 2017 11:30:03: 8000000 INFO @ Wed, 28 Jun 2017 11:30:05: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 11:30:05: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 11:30:05: #1 total tags in treatment: 3844161 INFO @ Wed, 28 Jun 2017 11:30:05: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:30:05: #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 11:30:05: #1 tags after filtering in treatment: 2210705 INFO @ Wed, 28 Jun 2017 11:30:05: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 28 Jun 2017 11:30:05: #1 finished! INFO @ Wed, 28 Jun 2017 11:30:05: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:30:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:30:05: #2 number of paired peaks: 32 WARNING @ Wed, 28 Jun 2017 11:30:05: Too few paired peaks (32) 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 11:30:05: Process for pairing-model is terminated! cat: SRX997176.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX997176.05_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 `SRX997176.05_*.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 `SRX997176.05_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 11:30:05: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 11:30:05: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 11:30:05: #1 total tags in treatment: 3844161 INFO @ Wed, 28 Jun 2017 11:30:05: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:30:05: #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 11:30:05: #1 tags after filtering in treatment: 2210705 INFO @ Wed, 28 Jun 2017 11:30:05: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 28 Jun 2017 11:30:05: #1 finished! INFO @ Wed, 28 Jun 2017 11:30:05: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:30:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:30:06: #2 number of paired peaks: 32 WARNING @ Wed, 28 Jun 2017 11:30:06: Too few paired peaks (32) 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 11:30:06: Process for pairing-model is terminated! cat: SRX997176.10_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 `SRX997176.10_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 `SRX997176.10_*.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 `SRX997176.10_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 11:30:06: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 11:30:06: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 11:30:06: #1 total tags in treatment: 3844161 INFO @ Wed, 28 Jun 2017 11:30:06: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:30:06: #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 11:30:06: #1 tags after filtering in treatment: 2210705 INFO @ Wed, 28 Jun 2017 11:30:06: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 28 Jun 2017 11:30:06: #1 finished! INFO @ Wed, 28 Jun 2017 11:30:06: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:30:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:30:06: #2 number of paired peaks: 32 WARNING @ Wed, 28 Jun 2017 11:30:06: Too few paired peaks (32) 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 11:30:06: Process for pairing-model is terminated! cat: SRX997176.20_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 `SRX997176.20_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 `SRX997176.20_*.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 `SRX997176.20_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。