Job ID = 10224025 SRX = SRX8754214 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3362122 spots for SRR12246285/SRR12246285.sra Written 3362122 spots for SRR12246285/SRR12246285.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: 00:01:26 3362122 reads; of these: 3362122 (100.00%) were paired; of these: 155115 (4.61%) aligned concordantly 0 times 2960147 (88.04%) aligned concordantly exactly 1 time 246860 (7.34%) aligned concordantly >1 times ---- 155115 pairs aligned concordantly 0 times; of these: 79356 (51.16%) aligned discordantly 1 time ---- 75759 pairs aligned 0 times concordantly or discordantly; of these: 151518 mates make up the pairs; of these: 120155 (79.30%) aligned 0 times 16299 (10.76%) aligned exactly 1 time 15064 (9.94%) aligned >1 times 98.21% overall alignment rate Time searching: 00:01:26 Overall time: 00:01:26 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_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] 23299 / 3281338 = 0.0071 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 09:13:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.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 09:13:01: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:13:01: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:13:07: 1000000 INFO @ Fri, 16 Oct 2020 09:13:11: 2000000 INFO @ Fri, 16 Oct 2020 09:13:16: 3000000 INFO @ Fri, 16 Oct 2020 09:13:21: 4000000 INFO @ Fri, 16 Oct 2020 09:13:25: 5000000 INFO @ Fri, 16 Oct 2020 09:13:30: 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 09:13:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.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 09:13:31: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:13:31: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:13:32: #1 tag size is determined as 38 bps INFO @ Fri, 16 Oct 2020 09:13:32: #1 tag size = 38 INFO @ Fri, 16 Oct 2020 09:13:32: #1 total tags in treatment: 3183927 INFO @ Fri, 16 Oct 2020 09:13:32: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:13:32: #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 09:13:32: #1 tags after filtering in treatment: 2891078 INFO @ Fri, 16 Oct 2020 09:13:32: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 16 Oct 2020 09:13:32: #1 finished! INFO @ Fri, 16 Oct 2020 09:13:32: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:13:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:13:32: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:13:32: 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 09:13:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.05_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/SRX8754214/SRX8754214.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:13:37: 1000000 INFO @ Fri, 16 Oct 2020 09:13:42: 2000000 INFO @ Fri, 16 Oct 2020 09:13:47: 3000000 INFO @ Fri, 16 Oct 2020 09:13:52: 4000000 INFO @ Fri, 16 Oct 2020 09:13:57: 5000000 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 09:14:01: 6000000 INFO @ Fri, 16 Oct 2020 09:14:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.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 09:14:02: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:14:02: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:14:04: #1 tag size is determined as 38 bps INFO @ Fri, 16 Oct 2020 09:14:04: #1 tag size = 38 INFO @ Fri, 16 Oct 2020 09:14:04: #1 total tags in treatment: 3183927 INFO @ Fri, 16 Oct 2020 09:14:04: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:14:04: #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 09:14:04: #1 tags after filtering in treatment: 2891078 INFO @ Fri, 16 Oct 2020 09:14:04: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 16 Oct 2020 09:14:04: #1 finished! INFO @ Fri, 16 Oct 2020 09:14:04: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:14:04: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:14:04: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:14:04: 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 09:14:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.10_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/SRX8754214/SRX8754214.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:14:07: 1000000 INFO @ Fri, 16 Oct 2020 09:14:12: 2000000 INFO @ Fri, 16 Oct 2020 09:14:17: 3000000 INFO @ Fri, 16 Oct 2020 09:14:23: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:14:28: 5000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:14:33: 6000000 INFO @ Fri, 16 Oct 2020 09:14:36: #1 tag size is determined as 38 bps INFO @ Fri, 16 Oct 2020 09:14:36: #1 tag size = 38 INFO @ Fri, 16 Oct 2020 09:14:36: #1 total tags in treatment: 3183927 INFO @ Fri, 16 Oct 2020 09:14:36: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:14:36: #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 09:14:36: #1 tags after filtering in treatment: 2891078 INFO @ Fri, 16 Oct 2020 09:14:36: #1 Redundant rate of treatment: 0.09 INFO @ Fri, 16 Oct 2020 09:14:36: #1 finished! INFO @ Fri, 16 Oct 2020 09:14:36: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:14:36: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:14:36: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:14:36: 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 09:14:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.20_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/SRX8754214/SRX8754214.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754214/SRX8754214.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling