Job ID = 11245176 sra ファイルのダウンロード中... Completed: 28948K bytes transferred in 3 seconds (74408K bits/sec), in 1 file. Completed: 214415K bytes transferred in 5 seconds (333744K 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 607565 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669619/SRR7818206.sra Written 607565 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669619/SRR7818206.sra Read 5636372 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669619/SRR7818207.sra Written 5636372 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669619/SRR7818207.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: 00:04:26 6243937 reads; of these: 6243937 (100.00%) were paired; of these: 622873 (9.98%) aligned concordantly 0 times 5039667 (80.71%) aligned concordantly exactly 1 time 581397 (9.31%) aligned concordantly >1 times ---- 622873 pairs aligned concordantly 0 times; of these: 25084 (4.03%) aligned discordantly 1 time ---- 597789 pairs aligned 0 times concordantly or discordantly; of these: 1195578 mates make up the pairs; of these: 958504 (80.17%) aligned 0 times 166457 (13.92%) aligned exactly 1 time 70617 (5.91%) aligned >1 times 92.32% overall alignment rate Time searching: 00:04:26 Overall time: 00:04:26 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] 964419 / 5639698 = 0.1710 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 23:49:34: # Command line: callpeak -t SRX4669619.bam -f BAM -g 12100000 -n SRX4669619.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669619.10 # format = BAM # ChIP-seq file = ['SRX4669619.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 23:49:34: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:49:34: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:49:34: # Command line: callpeak -t SRX4669619.bam -f BAM -g 12100000 -n SRX4669619.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669619.05 # format = BAM # ChIP-seq file = ['SRX4669619.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 23:49:34: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:49:34: # Command line: callpeak -t SRX4669619.bam -f BAM -g 12100000 -n SRX4669619.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669619.20 # format = BAM # ChIP-seq file = ['SRX4669619.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 23:49:34: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:49:34: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:49:34: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:49:40: 1000000 INFO @ Tue, 09 Oct 2018 23:49:40: 1000000 INFO @ Tue, 09 Oct 2018 23:49:40: 1000000 INFO @ Tue, 09 Oct 2018 23:49:46: 2000000 INFO @ Tue, 09 Oct 2018 23:49:47: 2000000 INFO @ Tue, 09 Oct 2018 23:49:47: 2000000 INFO @ Tue, 09 Oct 2018 23:49:52: 3000000 INFO @ Tue, 09 Oct 2018 23:49:53: 3000000 INFO @ Tue, 09 Oct 2018 23:49:53: 3000000 INFO @ Tue, 09 Oct 2018 23:49:58: 4000000 INFO @ Tue, 09 Oct 2018 23:49:59: 4000000 INFO @ Tue, 09 Oct 2018 23:49:59: 4000000 INFO @ Tue, 09 Oct 2018 23:50:04: 5000000 INFO @ Tue, 09 Oct 2018 23:50:05: 5000000 INFO @ Tue, 09 Oct 2018 23:50:05: 5000000 INFO @ Tue, 09 Oct 2018 23:50:10: 6000000 INFO @ Tue, 09 Oct 2018 23:50:11: 6000000 INFO @ Tue, 09 Oct 2018 23:50:11: 6000000 INFO @ Tue, 09 Oct 2018 23:50:16: 7000000 INFO @ Tue, 09 Oct 2018 23:50:17: 7000000 INFO @ Tue, 09 Oct 2018 23:50:17: 7000000 INFO @ Tue, 09 Oct 2018 23:50:21: 8000000 INFO @ Tue, 09 Oct 2018 23:50:24: 8000000 INFO @ Tue, 09 Oct 2018 23:50:24: 8000000 INFO @ Tue, 09 Oct 2018 23:50:27: 9000000 INFO @ Tue, 09 Oct 2018 23:50:30: 9000000 INFO @ Tue, 09 Oct 2018 23:50:30: 9000000 INFO @ Tue, 09 Oct 2018 23:50:31: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:50:31: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:50:31: #1 total tags in treatment: 4659934 INFO @ Tue, 09 Oct 2018 23:50:31: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:50:31: #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 23:50:31: #1 tags after filtering in treatment: 3945159 INFO @ Tue, 09 Oct 2018 23:50:31: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 09 Oct 2018 23:50:31: #1 finished! INFO @ Tue, 09 Oct 2018 23:50:31: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:50:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:50:31: #2 number of paired peaks: 30 WARNING @ Tue, 09 Oct 2018 23:50:31: Too few paired peaks (30) 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 23:50:31: Process for pairing-model is terminated! cat: SRX4669619.10_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 `SRX4669619.10_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 `SRX4669619.10_*.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 `SRX4669619.10_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 23:50:34: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:50:34: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:50:34: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:50:34: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:50:34: #1 total tags in treatment: 4659934 INFO @ Tue, 09 Oct 2018 23:50:34: #1 total tags in treatment: 4659934 INFO @ Tue, 09 Oct 2018 23:50:34: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:50:34: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:50:34: #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 23:50:34: #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 23:50:34: #1 tags after filtering in treatment: 3945159 INFO @ Tue, 09 Oct 2018 23:50:34: #1 tags after filtering in treatment: 3945159 INFO @ Tue, 09 Oct 2018 23:50:34: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 09 Oct 2018 23:50:34: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 09 Oct 2018 23:50:34: #1 finished! INFO @ Tue, 09 Oct 2018 23:50:34: #1 finished! INFO @ Tue, 09 Oct 2018 23:50:34: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:50:34: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:50:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:50:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:50:34: #2 number of paired peaks: 30 WARNING @ Tue, 09 Oct 2018 23:50:34: Too few paired peaks (30) 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 23:50:34: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:50:34: #2 number of paired peaks: 30 WARNING @ Tue, 09 Oct 2018 23:50:34: Too few paired peaks (30) 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 23:50:34: Process for pairing-model is terminated! cat: SRX4669619.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4669619.20_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) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669619.05_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 `SRX4669619.05_*.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 `SRX4669619.05_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 rm: cannot remove `SRX4669619.20_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 `SRX4669619.20_*.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 `SRX4669619.20_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。