Job ID = 10223954 SRX = SRX7496403 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5062794 spots for SRR10823014/SRR10823014.sra Written 5062794 spots for SRR10823014/SRR10823014.sra 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: 00:02:11 5062794 reads; of these: 5062794 (100.00%) were paired; of these: 2961968 (58.50%) aligned concordantly 0 times 1908709 (37.70%) aligned concordantly exactly 1 time 192117 (3.79%) aligned concordantly >1 times ---- 2961968 pairs aligned concordantly 0 times; of these: 8030 (0.27%) aligned discordantly 1 time ---- 2953938 pairs aligned 0 times concordantly or discordantly; of these: 5907876 mates make up the pairs; of these: 3764113 (63.71%) aligned 0 times 1928249 (32.64%) aligned exactly 1 time 215514 (3.65%) aligned >1 times 62.83% overall alignment rate Time searching: 00:02:11 Overall time: 00:02:11 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] 48536 / 2108494 = 0.0230 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:00:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.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 @ Fri, 16 Oct 2020 09:00:52: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:52: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:00:56: 1000000 INFO @ Fri, 16 Oct 2020 09:01:01: 2000000 INFO @ Fri, 16 Oct 2020 09:01:06: 3000000 INFO @ Fri, 16 Oct 2020 09:01:10: 4000000 INFO @ Fri, 16 Oct 2020 09:01:15: 5000000 INFO @ Fri, 16 Oct 2020 09:01:19: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:01:20: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:01:20: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:01:20: #1 total tags in treatment: 2052333 INFO @ Fri, 16 Oct 2020 09:01:20: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:01:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:01:20: #1 tags after filtering in treatment: 1658936 INFO @ Fri, 16 Oct 2020 09:01:20: #1 Redundant rate of treatment: 0.19 INFO @ Fri, 16 Oct 2020 09:01:20: #1 finished! INFO @ Fri, 16 Oct 2020 09:01:20: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:01:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:01:21: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:01:21: 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 @ Fri, 16 Oct 2020 09:01:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:01:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.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 @ Fri, 16 Oct 2020 09:01:22: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:01:22: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:01:26: 1000000 INFO @ Fri, 16 Oct 2020 09:01:30: 2000000 INFO @ Fri, 16 Oct 2020 09:01:34: 3000000 INFO @ Fri, 16 Oct 2020 09:01:38: 4000000 INFO @ Fri, 16 Oct 2020 09:01:41: 5000000 INFO @ Fri, 16 Oct 2020 09:01:45: 6000000 INFO @ Fri, 16 Oct 2020 09:01:46: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:01:46: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:01:46: #1 total tags in treatment: 2052333 INFO @ Fri, 16 Oct 2020 09:01:46: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:01:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:01:46: #1 tags after filtering in treatment: 1658936 INFO @ Fri, 16 Oct 2020 09:01:46: #1 Redundant rate of treatment: 0.19 INFO @ Fri, 16 Oct 2020 09:01:46: #1 finished! INFO @ Fri, 16 Oct 2020 09:01:46: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:01:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:01:46: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:01:46: 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 @ Fri, 16 Oct 2020 09:01:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:01:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.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 @ Fri, 16 Oct 2020 09:01:52: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:01:52: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:01:56: 1000000 INFO @ Fri, 16 Oct 2020 09:02:01: 2000000 INFO @ Fri, 16 Oct 2020 09:02:06: 3000000 INFO @ Fri, 16 Oct 2020 09:02:10: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:02:15: 5000000 INFO @ Fri, 16 Oct 2020 09:02:20: 6000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:02:21: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 09:02:21: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 09:02:21: #1 total tags in treatment: 2052333 INFO @ Fri, 16 Oct 2020 09:02:21: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:02:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:02:21: #1 tags after filtering in treatment: 1658936 INFO @ Fri, 16 Oct 2020 09:02:21: #1 Redundant rate of treatment: 0.19 INFO @ Fri, 16 Oct 2020 09:02:21: #1 finished! INFO @ Fri, 16 Oct 2020 09:02:21: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:02:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:02:21: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:02:21: 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 @ Fri, 16 Oct 2020 09:02:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496403/SRX7496403.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling