Job ID = 2011896 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 2,774,507 reads read : 5,549,014 reads written : 5,549,014 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:02:12 2774507 reads; of these: 2774507 (100.00%) were paired; of these: 332675 (11.99%) aligned concordantly 0 times 2061146 (74.29%) aligned concordantly exactly 1 time 380686 (13.72%) aligned concordantly >1 times ---- 332675 pairs aligned concordantly 0 times; of these: 192257 (57.79%) aligned discordantly 1 time ---- 140418 pairs aligned 0 times concordantly or discordantly; of these: 280836 mates make up the pairs; of these: 162174 (57.75%) aligned 0 times 46199 (16.45%) aligned exactly 1 time 72463 (25.80%) aligned >1 times 97.08% overall alignment rate Time searching: 00:02:12 Overall time: 00:02:12 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] 82869 / 2632748 = 0.0315 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 @ Sat, 06 Jul 2019 03:06:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.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 @ Sat, 06 Jul 2019 03:06:41: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:06:41: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:06:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.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 @ Sat, 06 Jul 2019 03:06:42: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:06:42: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:06:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.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 @ Sat, 06 Jul 2019 03:06:43: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:06:43: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:06:49: 1000000 INFO @ Sat, 06 Jul 2019 03:06:49: 1000000 INFO @ Sat, 06 Jul 2019 03:06:51: 1000000 INFO @ Sat, 06 Jul 2019 03:06:56: 2000000 INFO @ Sat, 06 Jul 2019 03:06:57: 2000000 INFO @ Sat, 06 Jul 2019 03:06:59: 2000000 INFO @ Sat, 06 Jul 2019 03:07:02: 3000000 INFO @ Sat, 06 Jul 2019 03:07:05: 3000000 INFO @ Sat, 06 Jul 2019 03:07:07: 3000000 INFO @ Sat, 06 Jul 2019 03:07:09: 4000000 INFO @ Sat, 06 Jul 2019 03:07:14: 4000000 INFO @ Sat, 06 Jul 2019 03:07:16: 4000000 INFO @ Sat, 06 Jul 2019 03:07:16: 5000000 INFO @ Sat, 06 Jul 2019 03:07:18: #1 tag size is determined as 37 bps INFO @ Sat, 06 Jul 2019 03:07:18: #1 tag size = 37 INFO @ Sat, 06 Jul 2019 03:07:18: #1 total tags in treatment: 2362596 INFO @ Sat, 06 Jul 2019 03:07:18: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:07:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:07:18: #1 tags after filtering in treatment: 2023770 INFO @ Sat, 06 Jul 2019 03:07:18: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 06 Jul 2019 03:07:18: #1 finished! INFO @ Sat, 06 Jul 2019 03:07:18: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:07:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:07:18: #2 number of paired peaks: 90 WARNING @ Sat, 06 Jul 2019 03:07:18: Too few paired peaks (90) 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 @ Sat, 06 Jul 2019 03:07:18: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 03:07:22: 5000000 INFO @ Sat, 06 Jul 2019 03:07:24: 5000000 INFO @ Sat, 06 Jul 2019 03:07:24: #1 tag size is determined as 37 bps INFO @ Sat, 06 Jul 2019 03:07:24: #1 tag size = 37 INFO @ Sat, 06 Jul 2019 03:07:24: #1 total tags in treatment: 2362596 INFO @ Sat, 06 Jul 2019 03:07:24: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:07:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:07:25: #1 tags after filtering in treatment: 2023770 INFO @ Sat, 06 Jul 2019 03:07:25: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 06 Jul 2019 03:07:25: #1 finished! INFO @ Sat, 06 Jul 2019 03:07:25: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:07:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:07:25: #2 number of paired peaks: 90 WARNING @ Sat, 06 Jul 2019 03:07:25: Too few paired peaks (90) 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 @ Sat, 06 Jul 2019 03:07:25: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 03:07:26: #1 tag size is determined as 37 bps INFO @ Sat, 06 Jul 2019 03:07:26: #1 tag size = 37 INFO @ Sat, 06 Jul 2019 03:07:26: #1 total tags in treatment: 2362596 INFO @ Sat, 06 Jul 2019 03:07:26: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:07:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:07:26: #1 tags after filtering in treatment: 2023770 INFO @ Sat, 06 Jul 2019 03:07:26: #1 Redundant rate of treatment: 0.14 INFO @ Sat, 06 Jul 2019 03:07:26: #1 finished! INFO @ Sat, 06 Jul 2019 03:07:26: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:07:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:07:26: #2 number of paired peaks: 90 WARNING @ Sat, 06 Jul 2019 03:07:26: Too few paired peaks (90) 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 @ Sat, 06 Jul 2019 03:07:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.20_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.05_model.r’: No such file or directory pass1 - making usageList (0 chroms): 1 millis rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.05_*.xls’: No such file or directory needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.10_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.20_model.r’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5383671/SRX5383671.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。