Job ID = 11245177 sra ファイルのダウンロード中... Completed: 23344K bytes transferred in 3 seconds (62550K bits/sec), in 1 file. Completed: 202088K bytes transferred in 5 seconds (304645K 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 496597 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669620/SRR7818208.sra Written 496597 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669620/SRR7818208.sra Read 5445643 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669620/SRR7818209.sra Written 5445643 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669620/SRR7818209.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 5942240 reads; of these: 5942240 (100.00%) were paired; of these: 690290 (11.62%) aligned concordantly 0 times 4635080 (78.00%) aligned concordantly exactly 1 time 616870 (10.38%) aligned concordantly >1 times ---- 690290 pairs aligned concordantly 0 times; of these: 28192 (4.08%) aligned discordantly 1 time ---- 662098 pairs aligned 0 times concordantly or discordantly; of these: 1324196 mates make up the pairs; of these: 1083112 (81.79%) aligned 0 times 170312 (12.86%) aligned exactly 1 time 70772 (5.34%) aligned >1 times 90.89% 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] 1041720 / 5277215 = 0.1974 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 23:50:00: # Command line: callpeak -t SRX4669620.bam -f BAM -g 12100000 -n SRX4669620.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669620.20 # format = BAM # ChIP-seq file = ['SRX4669620.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 23:50:00: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:50:00: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:50:00: # Command line: callpeak -t SRX4669620.bam -f BAM -g 12100000 -n SRX4669620.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669620.10 # format = BAM # ChIP-seq file = ['SRX4669620.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 23:50:00: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:50:00: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:50:00: # Command line: callpeak -t SRX4669620.bam -f BAM -g 12100000 -n SRX4669620.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669620.05 # format = BAM # ChIP-seq file = ['SRX4669620.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 23:50:00: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:50:00: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:50:05: 1000000 INFO @ Tue, 09 Oct 2018 23:50:06: 1000000 INFO @ Tue, 09 Oct 2018 23:50:06: 1000000 INFO @ Tue, 09 Oct 2018 23:50:11: 2000000 INFO @ Tue, 09 Oct 2018 23:50:13: 2000000 INFO @ Tue, 09 Oct 2018 23:50:13: 2000000 INFO @ Tue, 09 Oct 2018 23:50:17: 3000000 INFO @ Tue, 09 Oct 2018 23:50:19: 3000000 INFO @ Tue, 09 Oct 2018 23:50:19: 3000000 INFO @ Tue, 09 Oct 2018 23:50:24: 4000000 INFO @ Tue, 09 Oct 2018 23:50:26: 4000000 INFO @ Tue, 09 Oct 2018 23:50:26: 4000000 INFO @ Tue, 09 Oct 2018 23:50:30: 5000000 INFO @ Tue, 09 Oct 2018 23:50:33: 5000000 INFO @ Tue, 09 Oct 2018 23:50:33: 5000000 INFO @ Tue, 09 Oct 2018 23:50:37: 6000000 INFO @ Tue, 09 Oct 2018 23:50:40: 6000000 INFO @ Tue, 09 Oct 2018 23:50:40: 6000000 INFO @ Tue, 09 Oct 2018 23:50:43: 7000000 INFO @ Tue, 09 Oct 2018 23:50:47: 7000000 INFO @ Tue, 09 Oct 2018 23:50:47: 7000000 INFO @ Tue, 09 Oct 2018 23:50:49: 8000000 INFO @ Tue, 09 Oct 2018 23:50:54: 8000000 INFO @ Tue, 09 Oct 2018 23:50:54: 8000000 INFO @ Tue, 09 Oct 2018 23:50:54: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:50:54: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:50:54: #1 total tags in treatment: 4215464 INFO @ Tue, 09 Oct 2018 23:50:54: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:50:54: #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 23:50:54: #1 tags after filtering in treatment: 3527907 INFO @ Tue, 09 Oct 2018 23:50:54: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:50:54: #1 finished! INFO @ Tue, 09 Oct 2018 23:50:54: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:50:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:50:54: #2 number of paired peaks: 36 WARNING @ Tue, 09 Oct 2018 23:50:54: Too few paired peaks (36) 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 23:50:54: Process for pairing-model is terminated! cat: SRX4669620.05_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 `SRX4669620.05_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 `SRX4669620.05_*.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 `SRX4669620.05_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 @ Tue, 09 Oct 2018 23:50:59: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:50:59: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:50:59: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:50:59: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:50:59: #1 total tags in treatment: 4215464 INFO @ Tue, 09 Oct 2018 23:50:59: #1 total tags in treatment: 4215464 INFO @ Tue, 09 Oct 2018 23:50:59: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:50:59: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:50:59: #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 23:50:59: #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 23:50:59: #1 tags after filtering in treatment: 3527907 INFO @ Tue, 09 Oct 2018 23:50:59: #1 tags after filtering in treatment: 3527907 INFO @ Tue, 09 Oct 2018 23:50:59: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:50:59: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:50:59: #1 finished! INFO @ Tue, 09 Oct 2018 23:50:59: #1 finished! INFO @ Tue, 09 Oct 2018 23:50:59: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:50:59: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:50:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:50:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:50:59: #2 number of paired peaks: 36 WARNING @ Tue, 09 Oct 2018 23:50:59: Too few paired peaks (36) 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 23:50:59: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:50:59: #2 number of paired peaks: 36 WARNING @ Tue, 09 Oct 2018 23:50:59: Too few paired peaks (36) 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 23:50:59: Process for pairing-model is terminated! cat: SRX4669620.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4669620.20_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): 0 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669620.10_model.r'rm: cannot remove `SRX4669620.20_model.r': そのようなファイルやディレクトリはありません : 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 `SRX4669620.10_*.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 `SRX4669620.20_*.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 `SRX4669620.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4669620.20_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 CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。