Job ID = 11245197 sra ファイルのダウンロード中... Completed: 412124K bytes transferred in 8 seconds (420036K bits/sec), in 1 file. Completed: 413448K bytes transferred in 7 seconds (468712K bits/sec), in 1 file. Completed: 83849K bytes transferred in 4 seconds (164378K 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 790071 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669651/SRR7818268.sra Written 790071 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669651/SRR7818268.sra Read 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669651/SRR7818267.sra Written 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669651/SRR7818267.sra Read 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669651/SRR7818266.sra Written 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669651/SRR7818266.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: 00:08:31 8790071 reads; of these: 8790071 (100.00%) were paired; of these: 1051486 (11.96%) aligned concordantly 0 times 7115277 (80.95%) aligned concordantly exactly 1 time 623308 (7.09%) aligned concordantly >1 times ---- 1051486 pairs aligned concordantly 0 times; of these: 107583 (10.23%) aligned discordantly 1 time ---- 943903 pairs aligned 0 times concordantly or discordantly; of these: 1887806 mates make up the pairs; of these: 1598384 (84.67%) aligned 0 times 217767 (11.54%) aligned exactly 1 time 71655 (3.80%) aligned >1 times 90.91% overall alignment rate Time searching: 00:08:31 Overall time: 00:08:31 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] 85760 / 7820548 = 0.0110 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 00:03:00: # Command line: callpeak -t SRX4669651.bam -f BAM -g 12100000 -n SRX4669651.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669651.20 # format = BAM # ChIP-seq file = ['SRX4669651.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 00:03:00: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:03:00: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:03:00: # Command line: callpeak -t SRX4669651.bam -f BAM -g 12100000 -n SRX4669651.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669651.05 # format = BAM # ChIP-seq file = ['SRX4669651.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 00:03:00: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:03:00: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:03:00: # Command line: callpeak -t SRX4669651.bam -f BAM -g 12100000 -n SRX4669651.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669651.10 # format = BAM # ChIP-seq file = ['SRX4669651.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 00:03:00: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:03:00: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:03:10: 1000000 INFO @ Wed, 10 Oct 2018 00:03:11: 1000000 INFO @ Wed, 10 Oct 2018 00:03:11: 1000000 INFO @ Wed, 10 Oct 2018 00:03:20: 2000000 INFO @ Wed, 10 Oct 2018 00:03:23: 2000000 INFO @ Wed, 10 Oct 2018 00:03:23: 2000000 INFO @ Wed, 10 Oct 2018 00:03:30: 3000000 INFO @ Wed, 10 Oct 2018 00:03:34: 3000000 INFO @ Wed, 10 Oct 2018 00:03:34: 3000000 INFO @ Wed, 10 Oct 2018 00:03:39: 4000000 INFO @ Wed, 10 Oct 2018 00:03:45: 4000000 INFO @ Wed, 10 Oct 2018 00:03:45: 4000000 INFO @ Wed, 10 Oct 2018 00:03:48: 5000000 INFO @ Wed, 10 Oct 2018 00:03:55: 5000000 INFO @ Wed, 10 Oct 2018 00:03:55: 5000000 INFO @ Wed, 10 Oct 2018 00:03:57: 6000000 INFO @ Wed, 10 Oct 2018 00:04:06: 6000000 INFO @ Wed, 10 Oct 2018 00:04:06: 6000000 INFO @ Wed, 10 Oct 2018 00:04:06: 7000000 INFO @ Wed, 10 Oct 2018 00:04:15: 8000000 INFO @ Wed, 10 Oct 2018 00:04:17: 7000000 INFO @ Wed, 10 Oct 2018 00:04:17: 7000000 INFO @ Wed, 10 Oct 2018 00:04:24: 9000000 INFO @ Wed, 10 Oct 2018 00:04:27: 8000000 INFO @ Wed, 10 Oct 2018 00:04:27: 8000000 INFO @ Wed, 10 Oct 2018 00:04:33: 10000000 INFO @ Wed, 10 Oct 2018 00:04:38: 9000000 INFO @ Wed, 10 Oct 2018 00:04:38: 9000000 INFO @ Wed, 10 Oct 2018 00:04:43: 11000000 INFO @ Wed, 10 Oct 2018 00:04:48: 10000000 INFO @ Wed, 10 Oct 2018 00:04:49: 10000000 INFO @ Wed, 10 Oct 2018 00:04:52: 12000000 INFO @ Wed, 10 Oct 2018 00:04:59: 11000000 INFO @ Wed, 10 Oct 2018 00:04:59: 11000000 INFO @ Wed, 10 Oct 2018 00:05:01: 13000000 INFO @ Wed, 10 Oct 2018 00:05:10: 12000000 INFO @ Wed, 10 Oct 2018 00:05:10: 12000000 INFO @ Wed, 10 Oct 2018 00:05:11: 14000000 INFO @ Wed, 10 Oct 2018 00:05:20: 15000000 INFO @ Wed, 10 Oct 2018 00:05:21: 13000000 INFO @ Wed, 10 Oct 2018 00:05:21: 13000000 INFO @ Wed, 10 Oct 2018 00:05:28: #1 tag size is determined as 75 bps INFO @ Wed, 10 Oct 2018 00:05:28: #1 tag size = 75 INFO @ Wed, 10 Oct 2018 00:05:28: #1 total tags in treatment: 7653493 INFO @ Wed, 10 Oct 2018 00:05:28: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:05:28: #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 00:05:28: #1 tags after filtering in treatment: 5918281 INFO @ Wed, 10 Oct 2018 00:05:28: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 10 Oct 2018 00:05:28: #1 finished! INFO @ Wed, 10 Oct 2018 00:05:28: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:05:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:05:28: #2 number of paired peaks: 0 WARNING @ Wed, 10 Oct 2018 00:05:28: 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 00:05:28: Process for pairing-model is terminated! cat: SRX4669651.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669651.20_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 `SRX4669651.20_*.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 `SRX4669651.20_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 00:05:32: 14000000 INFO @ Wed, 10 Oct 2018 00:05:32: 14000000 INFO @ Wed, 10 Oct 2018 00:05:43: 15000000 INFO @ Wed, 10 Oct 2018 00:05:43: 15000000 INFO @ Wed, 10 Oct 2018 00:05:51: #1 tag size is determined as 75 bps INFO @ Wed, 10 Oct 2018 00:05:51: #1 tag size = 75 INFO @ Wed, 10 Oct 2018 00:05:51: #1 total tags in treatment: 7653493 INFO @ Wed, 10 Oct 2018 00:05:51: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:05:51: #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 00:05:51: #1 tags after filtering in treatment: 5918281 INFO @ Wed, 10 Oct 2018 00:05:51: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 10 Oct 2018 00:05:51: #1 finished! INFO @ Wed, 10 Oct 2018 00:05:51: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:05:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:05:52: #1 tag size is determined as 75 bps INFO @ Wed, 10 Oct 2018 00:05:52: #1 tag size = 75 INFO @ Wed, 10 Oct 2018 00:05:52: #1 total tags in treatment: 7653493 INFO @ Wed, 10 Oct 2018 00:05:52: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:05:52: #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 00:05:52: #1 tags after filtering in treatment: 5918281 INFO @ Wed, 10 Oct 2018 00:05:52: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 10 Oct 2018 00:05:52: #1 finished! INFO @ Wed, 10 Oct 2018 00:05:52: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:05:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:05:52: #2 number of paired peaks: 0 WARNING @ Wed, 10 Oct 2018 00:05:52: 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 00:05:52: Process for pairing-model is terminated! cat: SRX4669651.05_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 `SRX4669651.05_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 `SRX4669651.05_*.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 `SRX4669651.05_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 00:05:52: #2 number of paired peaks: 0 WARNING @ Wed, 10 Oct 2018 00:05:52: 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 00:05:52: Process for pairing-model is terminated! cat: SRX4669651.10_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 `SRX4669651.10_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 `SRX4669651.10_*.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 `SRX4669651.10_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。