Job ID = 10224007 SRX = SRX8754196 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 1490048 spots for SRR12246267/SRR12246267.sra Written 1490048 spots for SRR12246267/SRR12246267.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: 00:00:46 1490048 reads; of these: 1490048 (100.00%) were paired; of these: 382768 (25.69%) aligned concordantly 0 times 799752 (53.67%) aligned concordantly exactly 1 time 307528 (20.64%) aligned concordantly >1 times ---- 382768 pairs aligned concordantly 0 times; of these: 182501 (47.68%) aligned discordantly 1 time ---- 200267 pairs aligned 0 times concordantly or discordantly; of these: 400534 mates make up the pairs; of these: 215162 (53.72%) aligned 0 times 32675 (8.16%) aligned exactly 1 time 152697 (38.12%) aligned >1 times 92.78% overall alignment rate Time searching: 00:00:46 Overall time: 00:00:46 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] 70224 / 1289069 = 0.0545 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 09:06:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.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 09:06:09: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:06:09: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:06:14: 1000000 INFO @ Fri, 16 Oct 2020 09:06:19: 2000000 INFO @ Fri, 16 Oct 2020 09:06:22: #1 tag size is determined as 38 bps INFO @ Fri, 16 Oct 2020 09:06:22: #1 tag size = 38 INFO @ Fri, 16 Oct 2020 09:06:22: #1 total tags in treatment: 1050661 INFO @ Fri, 16 Oct 2020 09:06:22: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:06:22: #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 09:06:22: #1 tags after filtering in treatment: 829878 INFO @ Fri, 16 Oct 2020 09:06:22: #1 Redundant rate of treatment: 0.21 INFO @ Fri, 16 Oct 2020 09:06:22: #1 finished! INFO @ Fri, 16 Oct 2020 09:06:22: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:06:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:06:22: #2 number of paired peaks: 51 WARNING @ Fri, 16 Oct 2020 09:06:22: Too few paired peaks (51) 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 09:06:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.05_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/SRX8754196/SRX8754196.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 09:06:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.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 09:06:39: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:06:39: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:06:44: 1000000 INFO @ Fri, 16 Oct 2020 09:06:49: 2000000 INFO @ Fri, 16 Oct 2020 09:06:51: #1 tag size is determined as 38 bps INFO @ Fri, 16 Oct 2020 09:06:51: #1 tag size = 38 INFO @ Fri, 16 Oct 2020 09:06:51: #1 total tags in treatment: 1050661 INFO @ Fri, 16 Oct 2020 09:06:51: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:06:51: #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 09:06:51: #1 tags after filtering in treatment: 829878 INFO @ Fri, 16 Oct 2020 09:06:51: #1 Redundant rate of treatment: 0.21 INFO @ Fri, 16 Oct 2020 09:06:51: #1 finished! INFO @ Fri, 16 Oct 2020 09:06:51: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:06:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:06:51: #2 number of paired peaks: 51 WARNING @ Fri, 16 Oct 2020 09:06:51: Too few paired peaks (51) 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 09:06:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.10_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/SRX8754196/SRX8754196.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.10_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 09:07:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.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 09:07:09: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:07:09: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:07:14: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:07:20: 2000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:07:23: #1 tag size is determined as 38 bps INFO @ Fri, 16 Oct 2020 09:07:23: #1 tag size = 38 INFO @ Fri, 16 Oct 2020 09:07:23: #1 total tags in treatment: 1050661 INFO @ Fri, 16 Oct 2020 09:07:23: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:07:23: #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 09:07:23: #1 tags after filtering in treatment: 829878 INFO @ Fri, 16 Oct 2020 09:07:23: #1 Redundant rate of treatment: 0.21 INFO @ Fri, 16 Oct 2020 09:07:23: #1 finished! INFO @ Fri, 16 Oct 2020 09:07:23: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:07:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:07:23: #2 number of paired peaks: 51 WARNING @ Fri, 16 Oct 2020 09:07:23: Too few paired peaks (51) 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 09:07:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.20_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/SRX8754196/SRX8754196.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754196/SRX8754196.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling