Job ID = 11245218 sra ファイルのダウンロード中... Completed: 411615K bytes transferred in 7 seconds (422094K bits/sec), in 1 file. Completed: 154662K bytes transferred in 4 seconds (274487K 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 1480652 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669667/SRR7818314.sra Written 1480652 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669667/SRR7818314.sra Read 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669667/SRR7818313.sra Written 4000000 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669667/SRR7818313.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: 00:05:11 5480652 reads; of these: 5480652 (100.00%) were paired; of these: 794476 (14.50%) aligned concordantly 0 times 4099980 (74.81%) aligned concordantly exactly 1 time 586196 (10.70%) aligned concordantly >1 times ---- 794476 pairs aligned concordantly 0 times; of these: 71738 (9.03%) aligned discordantly 1 time ---- 722738 pairs aligned 0 times concordantly or discordantly; of these: 1445476 mates make up the pairs; of these: 1228634 (85.00%) aligned 0 times 156649 (10.84%) aligned exactly 1 time 60193 (4.16%) aligned >1 times 88.79% overall alignment rate Time searching: 00:05:11 Overall time: 00:05:11 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] 44288 / 4742423 = 0.0093 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 00:00:10: # Command line: callpeak -t SRX4669667.bam -f BAM -g 12100000 -n SRX4669667.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669667.20 # format = BAM # ChIP-seq file = ['SRX4669667.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 00:00:10: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:00:10: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:00:10: # Command line: callpeak -t SRX4669667.bam -f BAM -g 12100000 -n SRX4669667.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669667.05 # format = BAM # ChIP-seq file = ['SRX4669667.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 00:00:10: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:00:10: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:00:10: # Command line: callpeak -t SRX4669667.bam -f BAM -g 12100000 -n SRX4669667.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669667.10 # format = BAM # ChIP-seq file = ['SRX4669667.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 00:00:10: #1 read tag files... INFO @ Wed, 10 Oct 2018 00:00:10: #1 read treatment tags... INFO @ Wed, 10 Oct 2018 00:00:18: 1000000 INFO @ Wed, 10 Oct 2018 00:00:18: 1000000 INFO @ Wed, 10 Oct 2018 00:00:18: 1000000 INFO @ Wed, 10 Oct 2018 00:00:25: 2000000 INFO @ Wed, 10 Oct 2018 00:00:25: 2000000 INFO @ Wed, 10 Oct 2018 00:00:27: 2000000 INFO @ Wed, 10 Oct 2018 00:00:32: 3000000 INFO @ Wed, 10 Oct 2018 00:00:32: 3000000 INFO @ Wed, 10 Oct 2018 00:00:34: 3000000 INFO @ Wed, 10 Oct 2018 00:00:40: 4000000 INFO @ Wed, 10 Oct 2018 00:00:40: 4000000 INFO @ Wed, 10 Oct 2018 00:00:43: 4000000 INFO @ Wed, 10 Oct 2018 00:00:47: 5000000 INFO @ Wed, 10 Oct 2018 00:00:47: 5000000 INFO @ Wed, 10 Oct 2018 00:00:51: 5000000 INFO @ Wed, 10 Oct 2018 00:00:54: 6000000 INFO @ Wed, 10 Oct 2018 00:00:55: 6000000 INFO @ Wed, 10 Oct 2018 00:00:58: 6000000 INFO @ Wed, 10 Oct 2018 00:01:01: 7000000 INFO @ Wed, 10 Oct 2018 00:01:02: 7000000 INFO @ Wed, 10 Oct 2018 00:01:06: 7000000 INFO @ Wed, 10 Oct 2018 00:01:09: 8000000 INFO @ Wed, 10 Oct 2018 00:01:10: 8000000 INFO @ Wed, 10 Oct 2018 00:01:13: 8000000 INFO @ Wed, 10 Oct 2018 00:01:16: 9000000 INFO @ Wed, 10 Oct 2018 00:01:17: 9000000 INFO @ Wed, 10 Oct 2018 00:01:20: 9000000 INFO @ Wed, 10 Oct 2018 00:01:20: #1 tag size is determined as 75 bps INFO @ Wed, 10 Oct 2018 00:01:20: #1 tag size = 75 INFO @ Wed, 10 Oct 2018 00:01:20: #1 total tags in treatment: 4642170 INFO @ Wed, 10 Oct 2018 00:01:20: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:01:20: #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 00:01:20: #1 tags after filtering in treatment: 3901649 INFO @ Wed, 10 Oct 2018 00:01:20: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 10 Oct 2018 00:01:20: #1 finished! INFO @ Wed, 10 Oct 2018 00:01:20: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:01:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:01:21: #2 number of paired peaks: 37 WARNING @ Wed, 10 Oct 2018 00:01:21: Too few paired peaks (37) 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 00:01:21: Process for pairing-model is terminated! cat: SRX4669667.20_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 `SRX4669667.20_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 `SRX4669667.20_*.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 `SRX4669667.20_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 00:01:21: #1 tag size is determined as 75 bps INFO @ Wed, 10 Oct 2018 00:01:21: #1 tag size = 75 INFO @ Wed, 10 Oct 2018 00:01:21: #1 total tags in treatment: 4642170 INFO @ Wed, 10 Oct 2018 00:01:21: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:01:21: #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 00:01:22: #1 tags after filtering in treatment: 3901649 INFO @ Wed, 10 Oct 2018 00:01:22: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 10 Oct 2018 00:01:22: #1 finished! INFO @ Wed, 10 Oct 2018 00:01:22: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:01:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:01:22: #2 number of paired peaks: 37 WARNING @ Wed, 10 Oct 2018 00:01:22: Too few paired peaks (37) 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 00:01:22: Process for pairing-model is terminated! cat: SRX4669667.05_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 `SRX4669667.05_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 `SRX4669667.05_*.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 `SRX4669667.05_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 00:01:24: #1 tag size is determined as 75 bps INFO @ Wed, 10 Oct 2018 00:01:24: #1 tag size = 75 INFO @ Wed, 10 Oct 2018 00:01:24: #1 total tags in treatment: 4642170 INFO @ Wed, 10 Oct 2018 00:01:24: #1 user defined the maximum tags... INFO @ Wed, 10 Oct 2018 00:01:24: #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 00:01:24: #1 tags after filtering in treatment: 3901649 INFO @ Wed, 10 Oct 2018 00:01:24: #1 Redundant rate of treatment: 0.16 INFO @ Wed, 10 Oct 2018 00:01:24: #1 finished! INFO @ Wed, 10 Oct 2018 00:01:24: #2 Build Peak Model... INFO @ Wed, 10 Oct 2018 00:01:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 10 Oct 2018 00:01:24: #2 number of paired peaks: 37 WARNING @ Wed, 10 Oct 2018 00:01:24: Too few paired peaks (37) 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 00:01:24: Process for pairing-model is terminated! cat: SRX4669667.10_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 `SRX4669667.10_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 `SRX4669667.10_*.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 `SRX4669667.10_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。