Job ID = 9160007 sra ファイルのダウンロード中... Completed: 810800K bytes transferred in 13 seconds (491523K 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 8542248 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2402732/SRR5085177.sra Written 8542248 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: 00:09:26 8542248 reads; of these: 8542248 (100.00%) were paired; of these: 472666 (5.53%) aligned concordantly 0 times 5882554 (68.86%) aligned concordantly exactly 1 time 2187028 (25.60%) aligned concordantly >1 times ---- 472666 pairs aligned concordantly 0 times; of these: 55540 (11.75%) aligned discordantly 1 time ---- 417126 pairs aligned 0 times concordantly or discordantly; of these: 834252 mates make up the pairs; of these: 619859 (74.30%) aligned 0 times 130404 (15.63%) aligned exactly 1 time 83989 (10.07%) aligned >1 times 96.37% overall alignment rate Time searching: 00:09:26 Overall time: 00:09:26 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] 2872921 / 8120175 = 0.3538 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 01:51:03: # Command line: callpeak -t SRX2402732.bam -f BAM -g 12100000 -n SRX2402732.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2402732.05 # format = BAM # ChIP-seq file = ['SRX2402732.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 01:51:03: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:51:03: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:51:03: # Command line: callpeak -t SRX2402732.bam -f BAM -g 12100000 -n SRX2402732.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2402732.10 # format = BAM # ChIP-seq file = ['SRX2402732.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 01:51:03: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:51:03: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:51:03: # Command line: callpeak -t SRX2402732.bam -f BAM -g 12100000 -n SRX2402732.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2402732.20 # format = BAM # ChIP-seq file = ['SRX2402732.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 01:51:03: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:51:03: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:51:11: 1000000 INFO @ Wed, 28 Jun 2017 01:51:11: 1000000 INFO @ Wed, 28 Jun 2017 01:51:11: 1000000 INFO @ Wed, 28 Jun 2017 01:51:19: 2000000 INFO @ Wed, 28 Jun 2017 01:51:19: 2000000 INFO @ Wed, 28 Jun 2017 01:51:20: 2000000 INFO @ Wed, 28 Jun 2017 01:51:28: 3000000 INFO @ Wed, 28 Jun 2017 01:51:28: 3000000 INFO @ Wed, 28 Jun 2017 01:51:29: 3000000 INFO @ Wed, 28 Jun 2017 01:51:35: 4000000 INFO @ Wed, 28 Jun 2017 01:51:35: 4000000 INFO @ Wed, 28 Jun 2017 01:51:38: 4000000 INFO @ Wed, 28 Jun 2017 01:51:43: 5000000 INFO @ Wed, 28 Jun 2017 01:51:43: 5000000 INFO @ Wed, 28 Jun 2017 01:51:46: 5000000 INFO @ Wed, 28 Jun 2017 01:51:50: 6000000 INFO @ Wed, 28 Jun 2017 01:51:50: 6000000 INFO @ Wed, 28 Jun 2017 01:51:54: 6000000 INFO @ Wed, 28 Jun 2017 01:51:57: 7000000 INFO @ Wed, 28 Jun 2017 01:51:57: 7000000 INFO @ Wed, 28 Jun 2017 01:52:02: 7000000 INFO @ Wed, 28 Jun 2017 01:52:05: 8000000 INFO @ Wed, 28 Jun 2017 01:52:05: 8000000 INFO @ Wed, 28 Jun 2017 01:52:11: 8000000 INFO @ Wed, 28 Jun 2017 01:52:12: 9000000 INFO @ Wed, 28 Jun 2017 01:52:12: 9000000 INFO @ Wed, 28 Jun 2017 01:52:19: 9000000 INFO @ Wed, 28 Jun 2017 01:52:20: 10000000 INFO @ Wed, 28 Jun 2017 01:52:20: 10000000 INFO @ Wed, 28 Jun 2017 01:52:25: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:52:25: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:52:25: #1 total tags in treatment: 5201569 INFO @ Wed, 28 Jun 2017 01:52:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:52:25: #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 01:52:25: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:52:25: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:52:25: #1 total tags in treatment: 5201569 INFO @ Wed, 28 Jun 2017 01:52:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:52:25: #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 01:52:25: #1 tags after filtering in treatment: 3625867 INFO @ Wed, 28 Jun 2017 01:52:25: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 01:52:25: #1 finished! INFO @ Wed, 28 Jun 2017 01:52:25: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:52:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:52:25: #1 tags after filtering in treatment: 3625867 INFO @ Wed, 28 Jun 2017 01:52:25: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 01:52:25: #1 finished! INFO @ Wed, 28 Jun 2017 01:52:25: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:52:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:52:25: #2 number of paired peaks: 40 WARNING @ Wed, 28 Jun 2017 01:52:25: Too few paired peaks (40) 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 01:52:25: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 01:52:25: #2 number of paired peaks: 40 WARNING @ Wed, 28 Jun 2017 01:52:25: Too few paired peaks (40) 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 01:52:25: Process for pairing-model is terminated! cat: SRX2402732.05_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: SRX2402732.10_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) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2402732.05_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 `SRX2402732.05_*.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 `SRX2402732.05_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 rm: cannot remove `SRX2402732.10_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 `SRX2402732.10_*.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 `SRX2402732.10_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 01:52:27: 10000000 INFO @ Wed, 28 Jun 2017 01:52:32: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:52:32: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:52:32: #1 total tags in treatment: 5201569 INFO @ Wed, 28 Jun 2017 01:52:32: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:52:32: #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 01:52:32: #1 tags after filtering in treatment: 3625867 INFO @ Wed, 28 Jun 2017 01:52:32: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 01:52:32: #1 finished! INFO @ Wed, 28 Jun 2017 01:52:32: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:52:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:52:32: #2 number of paired peaks: 40 WARNING @ Wed, 28 Jun 2017 01:52:32: Too few paired peaks (40) 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 01:52:32: Process for pairing-model is terminated! cat: SRX2402732.20_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 `SRX2402732.20_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 `SRX2402732.20_*.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 `SRX2402732.20_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。