Job ID = 11245207 sra ファイルのダウンロード中... Completed: 407602K bytes transferred in 7 seconds (451555K bits/sec), in 1 file. Completed: 413293K bytes transferred in 7 seconds (434141K bits/sec), in 1 file. Completed: 185295K bytes transferred in 5 seconds (290898K 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 1807778 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669659/SRR7818288.sra Written 1807778 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669659/SRR7818288.sra Read 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669659/SRR7818287.sra Written 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669659/SRR7818287.sra Read 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669659/SRR7818286.sra Written 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669659/SRR7818286.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: 00:08:17 9807778 reads; of these: 9807778 (100.00%) were paired; of these: 2628122 (26.80%) aligned concordantly 0 times 6268065 (63.91%) aligned concordantly exactly 1 time 911591 (9.29%) aligned concordantly >1 times ---- 2628122 pairs aligned concordantly 0 times; of these: 109167 (4.15%) aligned discordantly 1 time ---- 2518955 pairs aligned 0 times concordantly or discordantly; of these: 5037910 mates make up the pairs; of these: 4588350 (91.08%) aligned 0 times 349587 (6.94%) aligned exactly 1 time 99973 (1.98%) aligned >1 times 76.61% overall alignment rate Time searching: 00:08:17 Overall time: 00:08:17 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] 117660 / 7264033 = 0.0162 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, 10 Oct 2018 00:04:23: # Command line: callpeak -t SRX4669659.bam -f BAM -g 12100000 -n SRX4669659.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669659.20 # format = BAM # ChIP-seq file = ['SRX4669659.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, 10 Oct 2018 00:04:23: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:04:23: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:04:23: # Command line: callpeak -t SRX4669659.bam -f BAM -g 12100000 -n SRX4669659.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669659.10 # format = BAM # ChIP-seq file = ['SRX4669659.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, 10 Oct 2018 00:04:23: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:04:23: # Command line: callpeak -t SRX4669659.bam -f BAM -g 12100000 -n SRX4669659.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669659.05 # format = BAM # ChIP-seq file = ['SRX4669659.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, 10 Oct 2018 00:04:23: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:04:23: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:04:23: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:04:30: 1000000 INFO @ Wed, 10 Oct 2018 00:04:30: 1000000 INFO @ Wed, 10 Oct 2018 00:04:30: 1000000 INFO @ Wed, 10 Oct 2018 00:04:37: 2000000 INFO @ Wed, 10 Oct 2018 00:04:37: 2000000 INFO @ Wed, 10 Oct 2018 00:04:37: 2000000 INFO @ Wed, 10 Oct 2018 00:04:43: 3000000 INFO @ Wed, 10 Oct 2018 00:04:44: 3000000 INFO @ Wed, 10 Oct 2018 00:04:44: 3000000 INFO @ Wed, 10 Oct 2018 00:04:51: 4000000 INFO @ Wed, 10 Oct 2018 00:04:51: 4000000 INFO @ Wed, 10 Oct 2018 00:04:52: 4000000 INFO @ Wed, 10 Oct 2018 00:04:59: 5000000 INFO @ Wed, 10 Oct 2018 00:04:59: 5000000 INFO @ Wed, 10 Oct 2018 00:05:01: 5000000 INFO @ Wed, 10 Oct 2018 00:05:07: 6000000 INFO @ Wed, 10 Oct 2018 00:05:07: 6000000 INFO @ Wed, 10 Oct 2018 00:05:09: 6000000 INFO @ Wed, 10 Oct 2018 00:05:15: 7000000 INFO @ Wed, 10 Oct 2018 00:05:15: 7000000 INFO @ Wed, 10 Oct 2018 00:05:18: 7000000 INFO @ Wed, 10 Oct 2018 00:05:23: 8000000 INFO @ Wed, 10 Oct 2018 00:05:23: 8000000 INFO @ Wed, 10 Oct 2018 00:05:26: 8000000 INFO @ Wed, 10 Oct 2018 00:05:30: 9000000 INFO @ Wed, 10 Oct 2018 00:05:30: 9000000 INFO @ Wed, 10 Oct 2018 00:05:35: 9000000 INFO @ Wed, 10 Oct 2018 00:05:38: 10000000 INFO @ Wed, 10 Oct 2018 00:05:38: 10000000 INFO @ Wed, 10 Oct 2018 00:05:42: 10000000 INFO @ Wed, 10 Oct 2018 00:05:46: 11000000 INFO @ Wed, 10 Oct 2018 00:05:46: 11000000 INFO @ Wed, 10 Oct 2018 00:05:50: 11000000 INFO @ Wed, 10 Oct 2018 00:05:54: 12000000 INFO @ Wed, 10 Oct 2018 00:05:54: 12000000 INFO @ Wed, 10 Oct 2018 00:05:57: 12000000 INFO @ Wed, 10 Oct 2018 00:06:03: 13000000 INFO @ Wed, 10 Oct 2018 00:06:03: 13000000 INFO @ Wed, 10 Oct 2018 00:06:04: 13000000 INFO @ Wed, 10 Oct 2018 00:06:10: 14000000 INFO @ Wed, 10 Oct 2018 00:06:10: 14000000 INFO @ Wed, 10 Oct 2018 00:06:11: 14000000 INFO @ Wed, 10 Oct 2018 00:06:16: #1 tag size is determined as 75 bps INFO @ Wed, 10 Oct 2018 00:06:16: #1 tag size = 75 INFO @ Wed, 10 Oct 2018 00:06:16: #1 total tags in treatment: 7062862 INFO @ Wed, 10 Oct 2018 00:06:16: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:06:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 10 Oct 2018 00:06:16: #1 tag size is determined as 75 bps INFO @ Wed, 10 Oct 2018 00:06:16: #1 tag size = 75 INFO @ Wed, 10 Oct 2018 00:06:16: #1 total tags in treatment: 7062862 INFO @ Wed, 10 Oct 2018 00:06:16: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:06:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 10 Oct 2018 00:06:16: #1 tags after filtering in treatment: 5562168 INFO @ Wed, 10 Oct 2018 00:06:16: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 10 Oct 2018 00:06:16: #1 finished! INFO @ Wed, 10 Oct 2018 00:06:16: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:06:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:06:16: #1 tags after filtering in treatment: 5562168 INFO @ Wed, 10 Oct 2018 00:06:16: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 10 Oct 2018 00:06:16: #1 finished! INFO @ Wed, 10 Oct 2018 00:06:16: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:06:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:06:17: #2 number of paired peaks: 0 WARNING @ Wed, 10 Oct 2018 00:06:17: 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, 10 Oct 2018 00:06:17: Process for pairing-model is terminated! cat: SRX4669659.20_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 `SRX4669659.20_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 `SRX4669659.20_*.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 `SRX4669659.20_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 @ Wed, 10 Oct 2018 00:06:17: #2 number of paired peaks: 0 WARNING @ Wed, 10 Oct 2018 00:06:17: 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, 10 Oct 2018 00:06:17: Process for pairing-model is terminated! cat: SRX4669659.05_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 `SRX4669659.05_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 `SRX4669659.05_*.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 `SRX4669659.05_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, 10 Oct 2018 00:06:17: #1 tag size is determined as 75 bps INFO @ Wed, 10 Oct 2018 00:06:17: #1 tag size = 75 INFO @ Wed, 10 Oct 2018 00:06:17: #1 total tags in treatment: 7062862 INFO @ Wed, 10 Oct 2018 00:06:17: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:06:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 10 Oct 2018 00:06:17: #1 tags after filtering in treatment: 5562168 INFO @ Wed, 10 Oct 2018 00:06:17: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 10 Oct 2018 00:06:17: #1 finished! INFO @ Wed, 10 Oct 2018 00:06:17: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:06:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:06:18: #2 number of paired peaks: 0 WARNING @ Wed, 10 Oct 2018 00:06:18: 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, 10 Oct 2018 00:06:18: Process for pairing-model is terminated! cat: SRX4669659.10_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 `SRX4669659.10_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 `SRX4669659.10_*.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 `SRX4669659.10_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。