Job ID = 9302916 sra ファイルのダウンロード中... Completed: 324393K bytes transferred in 10 seconds (243661K 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 5808301 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2745548/SRR5457485.sra Written 5808301 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: 00:06:12 5808301 reads; of these: 5808301 (100.00%) were paired; of these: 866789 (14.92%) aligned concordantly 0 times 3005135 (51.74%) aligned concordantly exactly 1 time 1936377 (33.34%) aligned concordantly >1 times ---- 866789 pairs aligned concordantly 0 times; of these: 371960 (42.91%) aligned discordantly 1 time ---- 494829 pairs aligned 0 times concordantly or discordantly; of these: 989658 mates make up the pairs; of these: 452396 (45.71%) aligned 0 times 63099 (6.38%) aligned exactly 1 time 474163 (47.91%) aligned >1 times 96.11% overall alignment rate Time searching: 00:06:12 Overall time: 00:06:12 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] 360101 / 5309247 = 0.0678 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 @ Fri, 28 Jul 2017 11:36:55: # Command line: callpeak -t SRX2745548.bam -f BAM -g 12100000 -n SRX2745548.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2745548.20 # format = BAM # ChIP-seq file = ['SRX2745548.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 @ Fri, 28 Jul 2017 11:36:55: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:36:55: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:36:55: # Command line: callpeak -t SRX2745548.bam -f BAM -g 12100000 -n SRX2745548.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2745548.10 # format = BAM # ChIP-seq file = ['SRX2745548.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 @ Fri, 28 Jul 2017 11:36:55: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:36:55: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:36:55: # Command line: callpeak -t SRX2745548.bam -f BAM -g 12100000 -n SRX2745548.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2745548.05 # format = BAM # ChIP-seq file = ['SRX2745548.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 @ Fri, 28 Jul 2017 11:36:55: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:36:55: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:37:01: 1000000 INFO @ Fri, 28 Jul 2017 11:37:01: 1000000 INFO @ Fri, 28 Jul 2017 11:37:01: 1000000 INFO @ Fri, 28 Jul 2017 11:37:07: 2000000 INFO @ Fri, 28 Jul 2017 11:37:07: 2000000 INFO @ Fri, 28 Jul 2017 11:37:07: 2000000 INFO @ Fri, 28 Jul 2017 11:37:13: 3000000 INFO @ Fri, 28 Jul 2017 11:37:13: 3000000 INFO @ Fri, 28 Jul 2017 11:37:13: 3000000 INFO @ Fri, 28 Jul 2017 11:37:18: 4000000 INFO @ Fri, 28 Jul 2017 11:37:18: 4000000 INFO @ Fri, 28 Jul 2017 11:37:19: 4000000 INFO @ Fri, 28 Jul 2017 11:37:24: 5000000 INFO @ Fri, 28 Jul 2017 11:37:24: 5000000 INFO @ Fri, 28 Jul 2017 11:37:25: 5000000 INFO @ Fri, 28 Jul 2017 11:37:30: 6000000 INFO @ Fri, 28 Jul 2017 11:37:30: 6000000 INFO @ Fri, 28 Jul 2017 11:37:31: 6000000 INFO @ Fri, 28 Jul 2017 11:37:35: 7000000 INFO @ Fri, 28 Jul 2017 11:37:35: 7000000 INFO @ Fri, 28 Jul 2017 11:37:37: 7000000 INFO @ Fri, 28 Jul 2017 11:37:41: 8000000 INFO @ Fri, 28 Jul 2017 11:37:41: 8000000 INFO @ Fri, 28 Jul 2017 11:37:42: 8000000 INFO @ Fri, 28 Jul 2017 11:37:47: 9000000 INFO @ Fri, 28 Jul 2017 11:37:47: 9000000 INFO @ Fri, 28 Jul 2017 11:37:48: 9000000 INFO @ Fri, 28 Jul 2017 11:37:53: 10000000 INFO @ Fri, 28 Jul 2017 11:37:53: 10000000 INFO @ Fri, 28 Jul 2017 11:37:54: 10000000 INFO @ Fri, 28 Jul 2017 11:37:55: #1 tag size is determined as 75 bps INFO @ Fri, 28 Jul 2017 11:37:55: #1 tag size = 75 INFO @ Fri, 28 Jul 2017 11:37:55: #1 total tags in treatment: 4584111 INFO @ Fri, 28 Jul 2017 11:37:55: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:37:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:37:55: #1 tag size is determined as 75 bps INFO @ Fri, 28 Jul 2017 11:37:55: #1 tag size = 75 INFO @ Fri, 28 Jul 2017 11:37:55: #1 total tags in treatment: 4584111 INFO @ Fri, 28 Jul 2017 11:37:55: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:37:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:37:55: #1 tags after filtering in treatment: 2971308 INFO @ Fri, 28 Jul 2017 11:37:55: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 28 Jul 2017 11:37:55: #1 finished! INFO @ Fri, 28 Jul 2017 11:37:55: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:37:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:37:55: #1 tags after filtering in treatment: 2971308 INFO @ Fri, 28 Jul 2017 11:37:55: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 28 Jul 2017 11:37:55: #1 finished! INFO @ Fri, 28 Jul 2017 11:37:55: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:37:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:37:56: #2 number of paired peaks: 31 WARNING @ Fri, 28 Jul 2017 11:37:56: Too few paired peaks (31) 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 @ Fri, 28 Jul 2017 11:37:56: Process for pairing-model is terminated! cat: SRX2745548.20_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): 0 millis INFO @ Fri, 28 Jul 2017 11:37:56: #2 number of paired peaks: 31 WARNING @ Fri, 28 Jul 2017 11:37:56: Too few paired peaks (31) 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 @ Fri, 28 Jul 2017 11:37:56: Process for pairing-model is terminated! needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2745548.20_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 `SRX2745548.20_*.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 `SRX2745548.20_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 cat: SRX2745548.05_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 `SRX2745548.05_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 `SRX2745548.05_*.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 `SRX2745548.05_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 @ Fri, 28 Jul 2017 11:37:57: #1 tag size is determined as 75 bps INFO @ Fri, 28 Jul 2017 11:37:57: #1 tag size = 75 INFO @ Fri, 28 Jul 2017 11:37:57: #1 total tags in treatment: 4584111 INFO @ Fri, 28 Jul 2017 11:37:57: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:37:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:37:57: #1 tags after filtering in treatment: 2971308 INFO @ Fri, 28 Jul 2017 11:37:57: #1 Redundant rate of treatment: 0.35 INFO @ Fri, 28 Jul 2017 11:37:57: #1 finished! INFO @ Fri, 28 Jul 2017 11:37:57: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:37:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:37:57: #2 number of paired peaks: 31 WARNING @ Fri, 28 Jul 2017 11:37:57: Too few paired peaks (31) 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 @ Fri, 28 Jul 2017 11:37:57: Process for pairing-model is terminated! cat: SRX2745548.10_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 `SRX2745548.10_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 `SRX2745548.10_*.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 `SRX2745548.10_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。