Job ID = 9160009 sra ファイルのダウンロード中... Completed: 1201895K bytes transferred in 19 seconds (497609K 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 12502233 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2402734/SRR5085179.sra Written 12502233 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: 00:13:15 12502233 reads; of these: 12502233 (100.00%) were paired; of these: 755112 (6.04%) aligned concordantly 0 times 8086551 (64.68%) aligned concordantly exactly 1 time 3660570 (29.28%) aligned concordantly >1 times ---- 755112 pairs aligned concordantly 0 times; of these: 61627 (8.16%) aligned discordantly 1 time ---- 693485 pairs aligned 0 times concordantly or discordantly; of these: 1386970 mates make up the pairs; of these: 1168980 (84.28%) aligned 0 times 133367 (9.62%) aligned exactly 1 time 84623 (6.10%) aligned >1 times 95.32% overall alignment rate Time searching: 00:13:15 Overall time: 00:13:15 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] 7274122 / 11795282 = 0.6167 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 01:57:00: # Command line: callpeak -t SRX2402734.bam -f BAM -g 12100000 -n SRX2402734.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2402734.05 # format = BAM # ChIP-seq file = ['SRX2402734.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 01:57:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:57:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:57:00: # Command line: callpeak -t SRX2402734.bam -f BAM -g 12100000 -n SRX2402734.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2402734.20 # format = BAM # ChIP-seq file = ['SRX2402734.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 01:57:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:57:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:57:00: # Command line: callpeak -t SRX2402734.bam -f BAM -g 12100000 -n SRX2402734.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2402734.10 # format = BAM # ChIP-seq file = ['SRX2402734.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 01:57:00: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:57:00: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:57:07: 1000000 INFO @ Wed, 28 Jun 2017 01:57:07: 1000000 INFO @ Wed, 28 Jun 2017 01:57:07: 1000000 INFO @ Wed, 28 Jun 2017 01:57:14: 2000000 INFO @ Wed, 28 Jun 2017 01:57:15: 2000000 INFO @ Wed, 28 Jun 2017 01:57:15: 2000000 INFO @ Wed, 28 Jun 2017 01:57:22: 3000000 INFO @ Wed, 28 Jun 2017 01:57:24: 3000000 INFO @ Wed, 28 Jun 2017 01:57:24: 3000000 INFO @ Wed, 28 Jun 2017 01:57:30: 4000000 INFO @ Wed, 28 Jun 2017 01:57:33: 4000000 INFO @ Wed, 28 Jun 2017 01:57:33: 4000000 INFO @ Wed, 28 Jun 2017 01:57:38: 5000000 INFO @ Wed, 28 Jun 2017 01:57:42: 5000000 INFO @ Wed, 28 Jun 2017 01:57:42: 5000000 INFO @ Wed, 28 Jun 2017 01:57:46: 6000000 INFO @ Wed, 28 Jun 2017 01:57:51: 6000000 INFO @ Wed, 28 Jun 2017 01:57:51: 6000000 INFO @ Wed, 28 Jun 2017 01:57:53: 7000000 INFO @ Wed, 28 Jun 2017 01:57:58: 7000000 INFO @ Wed, 28 Jun 2017 01:57:58: 7000000 INFO @ Wed, 28 Jun 2017 01:57:59: 8000000 INFO @ Wed, 28 Jun 2017 01:58:06: 8000000 INFO @ Wed, 28 Jun 2017 01:58:06: 8000000 INFO @ Wed, 28 Jun 2017 01:58:06: 9000000 INFO @ Wed, 28 Jun 2017 01:58:08: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:58:08: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:58:08: #1 total tags in treatment: 4495523 INFO @ Wed, 28 Jun 2017 01:58:08: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:58:08: #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 01:58:08: #1 tags after filtering in treatment: 2985288 INFO @ Wed, 28 Jun 2017 01:58:08: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 28 Jun 2017 01:58:08: #1 finished! INFO @ Wed, 28 Jun 2017 01:58:08: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:58:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:58:08: #2 number of paired peaks: 47 WARNING @ Wed, 28 Jun 2017 01:58:08: Too few paired peaks (47) 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 01:58:08: Process for pairing-model is terminated! cat: SRX2402734.10_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 `SRX2402734.10_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 `SRX2402734.10_*.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 `SRX2402734.10_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 01:58:13: 9000000 INFO @ Wed, 28 Jun 2017 01:58:13: 9000000 INFO @ Wed, 28 Jun 2017 01:58:15: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:58:15: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:58:15: #1 total tags in treatment: 4495523 INFO @ Wed, 28 Jun 2017 01:58:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:58:15: #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 01:58:15: #1 tag size is determined as 75 bps INFO @ Wed, 28 Jun 2017 01:58:15: #1 tag size = 75 INFO @ Wed, 28 Jun 2017 01:58:15: #1 total tags in treatment: 4495523 INFO @ Wed, 28 Jun 2017 01:58:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 01:58:15: #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 01:58:15: #1 tags after filtering in treatment: 2985288 INFO @ Wed, 28 Jun 2017 01:58:15: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 28 Jun 2017 01:58:15: #1 finished! INFO @ Wed, 28 Jun 2017 01:58:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:58:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:58:15: #1 tags after filtering in treatment: 2985288 INFO @ Wed, 28 Jun 2017 01:58:15: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 28 Jun 2017 01:58:15: #1 finished! INFO @ Wed, 28 Jun 2017 01:58:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 01:58:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 01:58:15: #2 number of paired peaks: 47 WARNING @ Wed, 28 Jun 2017 01:58:15: Too few paired peaks (47) 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 01:58:15: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 01:58:15: #2 number of paired peaks: 47 WARNING @ Wed, 28 Jun 2017 01:58:15: Too few paired peaks (47) 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 01:58:15: Process for pairing-model is terminated! cat: SRX2402734.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2402734.05_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) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2402734.20_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 `SRX2402734.20_*.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 `SRX2402734.20_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 rm: cannot remove `SRX2402734.05_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 `SRX2402734.05_*.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 `SRX2402734.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。