Job ID = 9161973 sra ファイルのダウンロード中... Completed: 732847K bytes transferred in 9 seconds (634013K 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 12230198 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423705/SRR2930994.sra Written 12230198 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: 00:09:54 12230198 reads; of these: 12230198 (100.00%) were paired; of these: 311348 (2.55%) aligned concordantly 0 times 10590866 (86.60%) aligned concordantly exactly 1 time 1327984 (10.86%) aligned concordantly >1 times ---- 311348 pairs aligned concordantly 0 times; of these: 15294 (4.91%) aligned discordantly 1 time ---- 296054 pairs aligned 0 times concordantly or discordantly; of these: 592108 mates make up the pairs; of these: 447809 (75.63%) aligned 0 times 116286 (19.64%) aligned exactly 1 time 28013 (4.73%) aligned >1 times 98.17% overall alignment rate Time searching: 00:09:54 Overall time: 00:09:54 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] 5786542 / 11921431 = 0.4854 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 05:23:28: # Command line: callpeak -t SRX1423705.bam -f BAM -g 12100000 -n SRX1423705.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423705.10 # format = BAM # ChIP-seq file = ['SRX1423705.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 05:23:28: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:28: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:28: # Command line: callpeak -t SRX1423705.bam -f BAM -g 12100000 -n SRX1423705.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423705.05 # format = BAM # ChIP-seq file = ['SRX1423705.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 05:23:28: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:28: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:28: # Command line: callpeak -t SRX1423705.bam -f BAM -g 12100000 -n SRX1423705.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423705.20 # format = BAM # ChIP-seq file = ['SRX1423705.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 05:23:28: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:28: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:35: 1000000 INFO @ Wed, 28 Jun 2017 05:23:35: 1000000 INFO @ Wed, 28 Jun 2017 05:23:35: 1000000 INFO @ Wed, 28 Jun 2017 05:23:42: 2000000 INFO @ Wed, 28 Jun 2017 05:23:42: 2000000 INFO @ Wed, 28 Jun 2017 05:23:42: 2000000 INFO @ Wed, 28 Jun 2017 05:23:48: 3000000 INFO @ Wed, 28 Jun 2017 05:23:48: 3000000 INFO @ Wed, 28 Jun 2017 05:23:50: 3000000 INFO @ Wed, 28 Jun 2017 05:23:54: 4000000 INFO @ Wed, 28 Jun 2017 05:23:54: 4000000 INFO @ Wed, 28 Jun 2017 05:23:57: 4000000 INFO @ Wed, 28 Jun 2017 05:24:01: 5000000 INFO @ Wed, 28 Jun 2017 05:24:01: 5000000 INFO @ Wed, 28 Jun 2017 05:24:03: 5000000 INFO @ Wed, 28 Jun 2017 05:24:07: 6000000 INFO @ Wed, 28 Jun 2017 05:24:07: 6000000 INFO @ Wed, 28 Jun 2017 05:24:10: 6000000 INFO @ Wed, 28 Jun 2017 05:24:14: 7000000 INFO @ Wed, 28 Jun 2017 05:24:14: 7000000 INFO @ Wed, 28 Jun 2017 05:24:17: 7000000 INFO @ Wed, 28 Jun 2017 05:24:20: 8000000 INFO @ Wed, 28 Jun 2017 05:24:20: 8000000 INFO @ Wed, 28 Jun 2017 05:24:23: 8000000 INFO @ Wed, 28 Jun 2017 05:24:27: 9000000 INFO @ Wed, 28 Jun 2017 05:24:27: 9000000 INFO @ Wed, 28 Jun 2017 05:24:30: 9000000 INFO @ Wed, 28 Jun 2017 05:24:33: 10000000 INFO @ Wed, 28 Jun 2017 05:24:33: 10000000 INFO @ Wed, 28 Jun 2017 05:24:37: 10000000 INFO @ Wed, 28 Jun 2017 05:24:40: 11000000 INFO @ Wed, 28 Jun 2017 05:24:40: 11000000 INFO @ Wed, 28 Jun 2017 05:24:43: 11000000 INFO @ Wed, 28 Jun 2017 05:24:46: 12000000 INFO @ Wed, 28 Jun 2017 05:24:46: 12000000 INFO @ Wed, 28 Jun 2017 05:24:49: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:49: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:49: #1 total tags in treatment: 6132898 INFO @ Wed, 28 Jun 2017 05:24:49: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:49: #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 05:24:49: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:49: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:49: #1 total tags in treatment: 6132898 INFO @ Wed, 28 Jun 2017 05:24:49: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:49: #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 05:24:49: #1 tags after filtering in treatment: 5055951 INFO @ Wed, 28 Jun 2017 05:24:49: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 28 Jun 2017 05:24:49: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:49: #1 tags after filtering in treatment: 5055951 INFO @ Wed, 28 Jun 2017 05:24:49: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 28 Jun 2017 05:24:49: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:49: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:50: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:50: 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 05:24:50: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 05:24:50: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:50: 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 05:24:50: Process for pairing-model is terminated! cat: SRX1423705.20_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: SRX1423705.05_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 `SRX1423705.20_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 `SRX1423705.20_*.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 `SRX1423705.20_peaks.narrowPeak'rm: : そのようなファイルやディレクトリはありませんcannot remove `SRX1423705.05_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 `SRX1423705.05_*.xls': 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 `SRX1423705.05_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 05:24:50: 12000000 INFO @ Wed, 28 Jun 2017 05:24:53: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:24:53: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:24:53: #1 total tags in treatment: 6132898 INFO @ Wed, 28 Jun 2017 05:24:53: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:24:53: #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 05:24:53: #1 tags after filtering in treatment: 5055951 INFO @ Wed, 28 Jun 2017 05:24:53: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 28 Jun 2017 05:24:53: #1 finished! INFO @ Wed, 28 Jun 2017 05:24:53: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:24:53: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:24:53: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:24:53: 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 05:24:53: Process for pairing-model is terminated! cat: SRX1423705.10_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 `SRX1423705.10_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 `SRX1423705.10_*.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 `SRX1423705.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。