Job ID = 10223942 SRX = SRX7496391 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4407844 spots for SRR10823002/SRR10823002.sra Written 4407844 spots for SRR10823002/SRR10823002.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: 00:01:46 4407844 reads; of these: 4407844 (100.00%) were paired; of these: 1948017 (44.19%) aligned concordantly 0 times 2137259 (48.49%) aligned concordantly exactly 1 time 322568 (7.32%) aligned concordantly >1 times ---- 1948017 pairs aligned concordantly 0 times; of these: 39284 (2.02%) aligned discordantly 1 time ---- 1908733 pairs aligned 0 times concordantly or discordantly; of these: 3817466 mates make up the pairs; of these: 2045885 (53.59%) aligned 0 times 1539603 (40.33%) aligned exactly 1 time 231978 (6.08%) aligned >1 times 76.79% overall alignment rate Time searching: 00:01:46 Overall time: 00:01:46 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] 125760 / 2496515 = 0.0504 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 08:57:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.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 08:57:19: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:57:19: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:57:23: 1000000 INFO @ Fri, 16 Oct 2020 08:57:28: 2000000 INFO @ Fri, 16 Oct 2020 08:57:32: 3000000 INFO @ Fri, 16 Oct 2020 08:57:36: 4000000 INFO @ Fri, 16 Oct 2020 08:57:40: 5000000 INFO @ Fri, 16 Oct 2020 08:57:44: 6000000 INFO @ Fri, 16 Oct 2020 08:57:46: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 08:57:46: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 08:57:46: #1 total tags in treatment: 2334442 INFO @ Fri, 16 Oct 2020 08:57:46: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:57:46: #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 08:57:46: #1 tags after filtering in treatment: 1735830 INFO @ Fri, 16 Oct 2020 08:57:46: #1 Redundant rate of treatment: 0.26 INFO @ Fri, 16 Oct 2020 08:57:46: #1 finished! INFO @ Fri, 16 Oct 2020 08:57:46: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:57:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:57:46: #2 number of paired peaks: 22 WARNING @ Fri, 16 Oct 2020 08:57:46: Too few paired peaks (22) 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 08:57:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.05_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/SRX7496391/SRX7496391.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.05_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 08:57:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.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 08:57:49: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:57:49: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:57:54: 1000000 INFO @ Fri, 16 Oct 2020 08:57:58: 2000000 INFO @ Fri, 16 Oct 2020 08:58:03: 3000000 INFO @ Fri, 16 Oct 2020 08:58:07: 4000000 INFO @ Fri, 16 Oct 2020 08:58:11: 5000000 INFO @ Fri, 16 Oct 2020 08:58:15: 6000000 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 08:58:17: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 08:58:17: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 08:58:17: #1 total tags in treatment: 2334442 INFO @ Fri, 16 Oct 2020 08:58:17: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:58:17: #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 08:58:17: #1 tags after filtering in treatment: 1735830 INFO @ Fri, 16 Oct 2020 08:58:17: #1 Redundant rate of treatment: 0.26 INFO @ Fri, 16 Oct 2020 08:58:17: #1 finished! INFO @ Fri, 16 Oct 2020 08:58:17: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:58:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:58:18: #2 number of paired peaks: 22 WARNING @ Fri, 16 Oct 2020 08:58:18: Too few paired peaks (22) 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 08:58:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.10_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/SRX7496391/SRX7496391.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 08:58:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.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 08:58:19: #1 read tag files... INFO @ Fri, 16 Oct 2020 08:58:19: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 08:58:24: 1000000 INFO @ Fri, 16 Oct 2020 08:58:28: 2000000 INFO @ Fri, 16 Oct 2020 08:58:33: 3000000 INFO @ Fri, 16 Oct 2020 08:58:37: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 08:58:41: 5000000 INFO @ Fri, 16 Oct 2020 08:58:45: 6000000 INFO @ Fri, 16 Oct 2020 08:58:48: #1 tag size is determined as 37 bps INFO @ Fri, 16 Oct 2020 08:58:48: #1 tag size = 37 INFO @ Fri, 16 Oct 2020 08:58:48: #1 total tags in treatment: 2334442 INFO @ Fri, 16 Oct 2020 08:58:48: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 08:58:48: #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 08:58:48: #1 tags after filtering in treatment: 1735830 INFO @ Fri, 16 Oct 2020 08:58:48: #1 Redundant rate of treatment: 0.26 INFO @ Fri, 16 Oct 2020 08:58:48: #1 finished! INFO @ Fri, 16 Oct 2020 08:58:48: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 08:58:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 08:58:48: #2 number of paired peaks: 22 WARNING @ Fri, 16 Oct 2020 08:58:48: Too few paired peaks (22) 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 08:58:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.20_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/SRX7496391/SRX7496391.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496391/SRX7496391.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。