Job ID = 11245144 sra ファイルのダウンロード中... Completed: 24116K bytes transferred in 8 seconds (22921K bits/sec), in 1 file. Completed: 171276K bytes transferred in 5 seconds (275876K 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 501939 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669594/SRR7818168.sra Written 501939 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669594/SRR7818168.sra Read 4501030 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669594/SRR7818169.sra Written 4501030 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669594/SRR7818169.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: 00:03:39 5002969 reads; of these: 5002969 (100.00%) were paired; of these: 498727 (9.97%) aligned concordantly 0 times 3733989 (74.64%) aligned concordantly exactly 1 time 770253 (15.40%) aligned concordantly >1 times ---- 498727 pairs aligned concordantly 0 times; of these: 17382 (3.49%) aligned discordantly 1 time ---- 481345 pairs aligned 0 times concordantly or discordantly; of these: 962690 mates make up the pairs; of these: 826324 (85.83%) aligned 0 times 74401 (7.73%) aligned exactly 1 time 61965 (6.44%) aligned >1 times 91.74% overall alignment rate Time searching: 00:03:39 Overall time: 00:03:39 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_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] 762083 / 4518673 = 0.1687 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 23:39:30: # Command line: callpeak -t SRX4669594.bam -f BAM -g 12100000 -n SRX4669594.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669594.10 # format = BAM # ChIP-seq file = ['SRX4669594.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 23:39:30: # Command line: callpeak -t SRX4669594.bam -f BAM -g 12100000 -n SRX4669594.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669594.20 # format = BAM # ChIP-seq file = ['SRX4669594.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 23:39:30: # Command line: callpeak -t SRX4669594.bam -f BAM -g 12100000 -n SRX4669594.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669594.05 # format = BAM # ChIP-seq file = ['SRX4669594.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 23:39:30: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:39:30: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:39:30: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:39:30: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:39:30: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:39:30: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:39:35: 1000000 INFO @ Tue, 09 Oct 2018 23:39:35: 1000000 INFO @ Tue, 09 Oct 2018 23:39:35: 1000000 INFO @ Tue, 09 Oct 2018 23:39:41: 2000000 INFO @ Tue, 09 Oct 2018 23:39:41: 2000000 INFO @ Tue, 09 Oct 2018 23:39:41: 2000000 INFO @ Tue, 09 Oct 2018 23:39:46: 3000000 INFO @ Tue, 09 Oct 2018 23:39:46: 3000000 INFO @ Tue, 09 Oct 2018 23:39:46: 3000000 INFO @ Tue, 09 Oct 2018 23:39:51: 4000000 INFO @ Tue, 09 Oct 2018 23:39:52: 4000000 INFO @ Tue, 09 Oct 2018 23:39:52: 4000000 INFO @ Tue, 09 Oct 2018 23:39:57: 5000000 INFO @ Tue, 09 Oct 2018 23:39:57: 5000000 INFO @ Tue, 09 Oct 2018 23:39:57: 5000000 INFO @ Tue, 09 Oct 2018 23:40:02: 6000000 INFO @ Tue, 09 Oct 2018 23:40:02: 6000000 INFO @ Tue, 09 Oct 2018 23:40:02: 6000000 INFO @ Tue, 09 Oct 2018 23:40:08: 7000000 INFO @ Tue, 09 Oct 2018 23:40:08: 7000000 INFO @ Tue, 09 Oct 2018 23:40:08: 7000000 INFO @ Tue, 09 Oct 2018 23:40:11: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:40:11: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:40:11: #1 total tags in treatment: 3744865 INFO @ Tue, 09 Oct 2018 23:40:11: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:40:11: #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 23:40:11: #1 tags after filtering in treatment: 2996681 INFO @ Tue, 09 Oct 2018 23:40:11: #1 Redundant rate of treatment: 0.20 INFO @ Tue, 09 Oct 2018 23:40:11: #1 finished! INFO @ Tue, 09 Oct 2018 23:40:11: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:40:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:40:11: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:40:11: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:40:11: #1 total tags in treatment: 3744865 INFO @ Tue, 09 Oct 2018 23:40:11: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:40:11: #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 23:40:11: #2 number of paired peaks: 39 WARNING @ Tue, 09 Oct 2018 23:40:11: Too few paired peaks (39) 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 23:40:11: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:40:11: #1 tags after filtering in treatment: 2996681 INFO @ Tue, 09 Oct 2018 23:40:11: #1 Redundant rate of treatment: 0.20 INFO @ Tue, 09 Oct 2018 23:40:11: #1 finished! INFO @ Tue, 09 Oct 2018 23:40:11: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:40:11: #2 looking for paired plus/minus strand peaks... cat: SRX4669594.20_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 `SRX4669594.20_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 `SRX4669594.20_*.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 `SRX4669594.20_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 23:40:11: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:40:11: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:40:11: #1 total tags in treatment: 3744865 INFO @ Tue, 09 Oct 2018 23:40:11: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:40:11: #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 23:40:12: #2 number of paired peaks: 39 WARNING @ Tue, 09 Oct 2018 23:40:12: Too few paired peaks (39) 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 23:40:12: Process for pairing-model is terminated! cat: SRX4669594.10_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 `SRX4669594.10_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 `SRX4669594.10_*.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 `SRX4669594.10_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 23:40:12: #1 tags after filtering in treatment: 2996681 INFO @ Tue, 09 Oct 2018 23:40:12: #1 Redundant rate of treatment: 0.20 INFO @ Tue, 09 Oct 2018 23:40:12: #1 finished! INFO @ Tue, 09 Oct 2018 23:40:12: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:40:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:40:12: #2 number of paired peaks: 39 WARNING @ Tue, 09 Oct 2018 23:40:12: Too few paired peaks (39) 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 23:40:12: Process for pairing-model is terminated! cat: SRX4669594.05_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 `SRX4669594.05_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 `SRX4669594.05_*.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 `SRX4669594.05_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。