Job ID = 11245170 sra ファイルのダウンロード中... Completed: 32869K bytes transferred in 3 seconds (80352K bits/sec), in 1 file. Completed: 250408K bytes transferred in 5 seconds (359517K 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 703495 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669616/SRR7818200.sra Written 703495 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669616/SRR7818200.sra Read 6776572 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669616/SRR7818201.sra Written 6776572 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669616/SRR7818201.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 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: 00:05:18 7480067 reads; of these: 7480067 (100.00%) were paired; of these: 833668 (11.15%) aligned concordantly 0 times 5933562 (79.32%) aligned concordantly exactly 1 time 712837 (9.53%) aligned concordantly >1 times ---- 833668 pairs aligned concordantly 0 times; of these: 30227 (3.63%) aligned discordantly 1 time ---- 803441 pairs aligned 0 times concordantly or discordantly; of these: 1606882 mates make up the pairs; of these: 1321689 (82.25%) aligned 0 times 200263 (12.46%) aligned exactly 1 time 84930 (5.29%) aligned >1 times 91.17% overall alignment rate Time searching: 00:05:18 Overall time: 00:05:18 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] 1166495 / 6671165 = 0.1749 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 23:49:56: # Command line: callpeak -t SRX4669616.bam -f BAM -g 12100000 -n SRX4669616.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669616.10 # format = BAM # ChIP-seq file = ['SRX4669616.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 23:49:56: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:49:56: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:49:56: # Command line: callpeak -t SRX4669616.bam -f BAM -g 12100000 -n SRX4669616.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669616.05 # format = BAM # ChIP-seq file = ['SRX4669616.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 23:49:56: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:49:56: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:49:56: # Command line: callpeak -t SRX4669616.bam -f BAM -g 12100000 -n SRX4669616.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669616.20 # format = BAM # ChIP-seq file = ['SRX4669616.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 23:49:56: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:49:56: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:50:01: 1000000 INFO @ Tue, 09 Oct 2018 23:50:01: 1000000 INFO @ Tue, 09 Oct 2018 23:50:01: 1000000 INFO @ Tue, 09 Oct 2018 23:50:07: 2000000 INFO @ Tue, 09 Oct 2018 23:50:07: 2000000 INFO @ Tue, 09 Oct 2018 23:50:07: 2000000 INFO @ Tue, 09 Oct 2018 23:50:12: 3000000 INFO @ Tue, 09 Oct 2018 23:50:12: 3000000 INFO @ Tue, 09 Oct 2018 23:50:13: 3000000 INFO @ Tue, 09 Oct 2018 23:50:18: 4000000 INFO @ Tue, 09 Oct 2018 23:50:18: 4000000 INFO @ Tue, 09 Oct 2018 23:50:18: 4000000 INFO @ Tue, 09 Oct 2018 23:50:23: 5000000 INFO @ Tue, 09 Oct 2018 23:50:23: 5000000 INFO @ Tue, 09 Oct 2018 23:50:24: 5000000 INFO @ Tue, 09 Oct 2018 23:50:29: 6000000 INFO @ Tue, 09 Oct 2018 23:50:29: 6000000 INFO @ Tue, 09 Oct 2018 23:50:29: 6000000 INFO @ Tue, 09 Oct 2018 23:50:34: 7000000 INFO @ Tue, 09 Oct 2018 23:50:34: 7000000 INFO @ Tue, 09 Oct 2018 23:50:35: 7000000 INFO @ Tue, 09 Oct 2018 23:50:39: 8000000 INFO @ Tue, 09 Oct 2018 23:50:39: 8000000 INFO @ Tue, 09 Oct 2018 23:50:40: 8000000 INFO @ Tue, 09 Oct 2018 23:50:45: 9000000 INFO @ Tue, 09 Oct 2018 23:50:45: 9000000 INFO @ Tue, 09 Oct 2018 23:50:46: 9000000 INFO @ Tue, 09 Oct 2018 23:50:50: 10000000 INFO @ Tue, 09 Oct 2018 23:50:50: 10000000 INFO @ Tue, 09 Oct 2018 23:50:51: 10000000 INFO @ Tue, 09 Oct 2018 23:50:55: 11000000 INFO @ Tue, 09 Oct 2018 23:50:55: 11000000 INFO @ Tue, 09 Oct 2018 23:50:57: 11000000 INFO @ Tue, 09 Oct 2018 23:50:57: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:50:57: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:50:57: #1 total tags in treatment: 5484625 INFO @ Tue, 09 Oct 2018 23:50:57: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:50:57: #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 23:50:57: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:50:57: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:50:57: #1 total tags in treatment: 5484625 INFO @ Tue, 09 Oct 2018 23:50:57: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:50:57: #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 23:50:57: #1 tags after filtering in treatment: 4532197 INFO @ Tue, 09 Oct 2018 23:50:57: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:50:57: #1 finished! INFO @ Tue, 09 Oct 2018 23:50:57: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:50:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:50:57: #1 tags after filtering in treatment: 4532197 INFO @ Tue, 09 Oct 2018 23:50:57: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:50:57: #1 finished! INFO @ Tue, 09 Oct 2018 23:50:57: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:50:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:50:58: #2 number of paired peaks: 27 WARNING @ Tue, 09 Oct 2018 23:50:58: Too few paired peaks (27) 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 23:50:58: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:50:58: #2 number of paired peaks: 27 WARNING @ Tue, 09 Oct 2018 23:50:58: Too few paired peaks (27) 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 23:50:58: Process for pairing-model is terminated! cat: SRX4669616.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4669616.05_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 pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669616.05_model.r'rm: cannot remove `SRX4669616.10_model.r': そのようなファイルやディレクトリはありません : 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 `SRX4669616.05_*.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 `SRX4669616.10_*.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 `SRX4669616.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4669616.10_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 CompletedMACS2peakCalling INFO @ Tue, 09 Oct 2018 23:50:58: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:50:58: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:50:58: #1 total tags in treatment: 5484625 INFO @ Tue, 09 Oct 2018 23:50:58: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:50:58: #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 23:50:58: #1 tags after filtering in treatment: 4532197 INFO @ Tue, 09 Oct 2018 23:50:58: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 09 Oct 2018 23:50:58: #1 finished! INFO @ Tue, 09 Oct 2018 23:50:58: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:50:58: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:50:59: #2 number of paired peaks: 27 WARNING @ Tue, 09 Oct 2018 23:50:59: Too few paired peaks (27) 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 23:50:59: Process for pairing-model is terminated! cat: SRX4669616.20_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 `SRX4669616.20_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 `SRX4669616.20_*.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 `SRX4669616.20_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。