Job ID = 11245156 sra ファイルのダウンロード中... Completed: 395531K bytes transferred in 6 seconds (496790K bits/sec), in 1 file. 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... Read 8026005 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669606/SRR7818189.sra Written 8026005 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669606/SRR7818189.sra rm: cannot remove `[DSE]RX*': 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 `[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: 00:05:41 8026005 reads; of these: 8026005 (100.00%) were paired; of these: 1319891 (16.45%) aligned concordantly 0 times 5879113 (73.25%) aligned concordantly exactly 1 time 827001 (10.30%) aligned concordantly >1 times ---- 1319891 pairs aligned concordantly 0 times; of these: 37821 (2.87%) aligned discordantly 1 time ---- 1282070 pairs aligned 0 times concordantly or discordantly; of these: 2564140 mates make up the pairs; of these: 2204883 (85.99%) aligned 0 times 256691 (10.01%) aligned exactly 1 time 102566 (4.00%) aligned >1 times 86.26% overall alignment rate Time searching: 00:05:41 Overall time: 00:05:41 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] 96492 / 6728672 = 0.0143 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 @ Tue, 09 Oct 2018 23:46:38: # Command line: callpeak -t SRX4669606.bam -f BAM -g 12100000 -n SRX4669606.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669606.05 # format = BAM # ChIP-seq file = ['SRX4669606.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 @ Tue, 09 Oct 2018 23:46:38: # Command line: callpeak -t SRX4669606.bam -f BAM -g 12100000 -n SRX4669606.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669606.20 # format = BAM # ChIP-seq file = ['SRX4669606.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 @ Tue, 09 Oct 2018 23:46:38: # Command line: callpeak -t SRX4669606.bam -f BAM -g 12100000 -n SRX4669606.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669606.10 # format = BAM # ChIP-seq file = ['SRX4669606.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 @ Tue, 09 Oct 2018 23:46:38: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:46:38: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:46:38: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:46:38: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:46:38: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:46:38: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:46:43: 1000000 INFO @ Tue, 09 Oct 2018 23:46:44: 1000000 INFO @ Tue, 09 Oct 2018 23:46:44: 1000000 INFO @ Tue, 09 Oct 2018 23:46:49: 2000000 INFO @ Tue, 09 Oct 2018 23:46:50: 2000000 INFO @ Tue, 09 Oct 2018 23:46:50: 2000000 INFO @ Tue, 09 Oct 2018 23:46:55: 3000000 INFO @ Tue, 09 Oct 2018 23:46:57: 3000000 INFO @ Tue, 09 Oct 2018 23:46:57: 3000000 INFO @ Tue, 09 Oct 2018 23:47:01: 4000000 INFO @ Tue, 09 Oct 2018 23:47:03: 4000000 INFO @ Tue, 09 Oct 2018 23:47:03: 4000000 INFO @ Tue, 09 Oct 2018 23:47:06: 5000000 INFO @ Tue, 09 Oct 2018 23:47:09: 5000000 INFO @ Tue, 09 Oct 2018 23:47:09: 5000000 INFO @ Tue, 09 Oct 2018 23:47:12: 6000000 INFO @ Tue, 09 Oct 2018 23:47:15: 6000000 INFO @ Tue, 09 Oct 2018 23:47:15: 6000000 INFO @ Tue, 09 Oct 2018 23:47:18: 7000000 INFO @ Tue, 09 Oct 2018 23:47:22: 7000000 INFO @ Tue, 09 Oct 2018 23:47:22: 7000000 INFO @ Tue, 09 Oct 2018 23:47:24: 8000000 INFO @ Tue, 09 Oct 2018 23:47:28: 8000000 INFO @ Tue, 09 Oct 2018 23:47:28: 8000000 INFO @ Tue, 09 Oct 2018 23:47:30: 9000000 INFO @ Tue, 09 Oct 2018 23:47:35: 9000000 INFO @ Tue, 09 Oct 2018 23:47:35: 9000000 INFO @ Tue, 09 Oct 2018 23:47:35: 10000000 INFO @ Tue, 09 Oct 2018 23:47:41: 10000000 INFO @ Tue, 09 Oct 2018 23:47:41: 10000000 INFO @ Tue, 09 Oct 2018 23:47:41: 11000000 INFO @ Tue, 09 Oct 2018 23:47:47: 12000000 INFO @ Tue, 09 Oct 2018 23:47:47: 11000000 INFO @ Tue, 09 Oct 2018 23:47:47: 11000000 INFO @ Tue, 09 Oct 2018 23:47:53: 13000000 INFO @ Tue, 09 Oct 2018 23:47:53: 12000000 INFO @ Tue, 09 Oct 2018 23:47:53: 12000000 INFO @ Tue, 09 Oct 2018 23:47:57: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 23:47:57: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 23:47:57: #1 total tags in treatment: 6610258 INFO @ Tue, 09 Oct 2018 23:47:57: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:47:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:47:57: #1 tags after filtering in treatment: 5252302 INFO @ Tue, 09 Oct 2018 23:47:57: #1 Redundant rate of treatment: 0.21 INFO @ Tue, 09 Oct 2018 23:47:57: #1 finished! INFO @ Tue, 09 Oct 2018 23:47:57: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:47:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:47:57: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:47:57: 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 @ Tue, 09 Oct 2018 23:47:57: Process for pairing-model is terminated! cat: SRX4669606.20_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 `SRX4669606.20_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 `SRX4669606.20_*.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 `SRX4669606.20_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 INFO @ Tue, 09 Oct 2018 23:48:00: 13000000 INFO @ Tue, 09 Oct 2018 23:48:00: 13000000 INFO @ Tue, 09 Oct 2018 23:48:03: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 23:48:03: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 23:48:03: #1 total tags in treatment: 6610258 INFO @ Tue, 09 Oct 2018 23:48:03: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:48:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:48:03: #1 tag size is determined as 50 bps INFO @ Tue, 09 Oct 2018 23:48:03: #1 tag size = 50 INFO @ Tue, 09 Oct 2018 23:48:03: #1 total tags in treatment: 6610258 INFO @ Tue, 09 Oct 2018 23:48:03: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:48:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:48:04: #1 tags after filtering in treatment: 5252302 INFO @ Tue, 09 Oct 2018 23:48:04: #1 Redundant rate of treatment: 0.21 INFO @ Tue, 09 Oct 2018 23:48:04: #1 finished! INFO @ Tue, 09 Oct 2018 23:48:04: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:48:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:48:04: #1 tags after filtering in treatment: 5252302 INFO @ Tue, 09 Oct 2018 23:48:04: #1 Redundant rate of treatment: 0.21 INFO @ Tue, 09 Oct 2018 23:48:04: #1 finished! INFO @ Tue, 09 Oct 2018 23:48:04: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:48:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:48:04: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:48:04: 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 @ Tue, 09 Oct 2018 23:48:04: Process for pairing-model is terminated! cat: SRX4669606.10_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 `SRX4669606.10_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 `SRX4669606.10_*.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 `SRX4669606.10_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 @ Tue, 09 Oct 2018 23:48:04: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 23:48:04: 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 @ Tue, 09 Oct 2018 23:48:04: Process for pairing-model is terminated! cat: SRX4669606.05_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 `SRX4669606.05_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 `SRX4669606.05_*.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 `SRX4669606.05_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。