Job ID = 14521336 SRX = SRX8952632 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12940372 spots for SRR12458254/SRR12458254.sra Written 12940372 spots for SRR12458254/SRR12458254.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: 00:03:56 12940372 reads; of these: 12940372 (100.00%) were paired; of these: 8394072 (64.87%) aligned concordantly 0 times 4060673 (31.38%) aligned concordantly exactly 1 time 485627 (3.75%) aligned concordantly >1 times ---- 8394072 pairs aligned concordantly 0 times; of these: 535046 (6.37%) aligned discordantly 1 time ---- 7859026 pairs aligned 0 times concordantly or discordantly; of these: 15718052 mates make up the pairs; of these: 13256772 (84.34%) aligned 0 times 2133571 (13.57%) aligned exactly 1 time 327709 (2.08%) aligned >1 times 48.78% overall alignment rate Time searching: 00:03:56 Overall time: 00:03:56 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_sort_core] merging from 8 files... [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] 1432091 / 5064539 = 0.2828 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:00:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.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, 15 Jan 2022 21:00:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:00:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:00:37: 1000000 INFO @ Sat, 15 Jan 2022 21:00:42: 2000000 INFO @ Sat, 15 Jan 2022 21:00:47: 3000000 INFO @ Sat, 15 Jan 2022 21:00:52: 4000000 INFO @ Sat, 15 Jan 2022 21:00:57: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:01:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.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, 15 Jan 2022 21:01:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:01:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:01:03: 6000000 INFO @ Sat, 15 Jan 2022 21:01:08: 1000000 INFO @ Sat, 15 Jan 2022 21:01:09: 7000000 INFO @ Sat, 15 Jan 2022 21:01:14: 2000000 INFO @ Sat, 15 Jan 2022 21:01:14: 8000000 INFO @ Sat, 15 Jan 2022 21:01:20: 3000000 INFO @ Sat, 15 Jan 2022 21:01:20: 9000000 INFO @ Sat, 15 Jan 2022 21:01:25: #1 tag size is determined as 41 bps INFO @ Sat, 15 Jan 2022 21:01:25: #1 tag size = 41 INFO @ Sat, 15 Jan 2022 21:01:25: #1 total tags in treatment: 3424996 INFO @ Sat, 15 Jan 2022 21:01:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:01:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 21:01:25: #1 tags after filtering in treatment: 2909727 INFO @ Sat, 15 Jan 2022 21:01:25: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 21:01:25: #1 finished! INFO @ Sat, 15 Jan 2022 21:01:25: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:01:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:01:25: #2 number of paired peaks: 91 WARNING @ Sat, 15 Jan 2022 21:01:25: Too few paired peaks (91) 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, 15 Jan 2022 21:01:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.05_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/SRX8952632/SRX8952632.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:01:26: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:01:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.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, 15 Jan 2022 21:01:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:01:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:01:32: 5000000 INFO @ Sat, 15 Jan 2022 21:01:38: 1000000 INFO @ Sat, 15 Jan 2022 21:01:38: 6000000 INFO @ Sat, 15 Jan 2022 21:01:43: 2000000 INFO @ Sat, 15 Jan 2022 21:01:45: 7000000 INFO @ Sat, 15 Jan 2022 21:01:49: 3000000 INFO @ Sat, 15 Jan 2022 21:01:51: 8000000 INFO @ Sat, 15 Jan 2022 21:01:55: 4000000 INFO @ Sat, 15 Jan 2022 21:01:57: 9000000 INFO @ Sat, 15 Jan 2022 21:02:01: 5000000 INFO @ Sat, 15 Jan 2022 21:02:02: #1 tag size is determined as 41 bps INFO @ Sat, 15 Jan 2022 21:02:02: #1 tag size = 41 INFO @ Sat, 15 Jan 2022 21:02:02: #1 total tags in treatment: 3424996 INFO @ Sat, 15 Jan 2022 21:02:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:02:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 21:02:02: #1 tags after filtering in treatment: 2909727 INFO @ Sat, 15 Jan 2022 21:02:02: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 21:02:02: #1 finished! INFO @ Sat, 15 Jan 2022 21:02:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:02:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:02:02: #2 number of paired peaks: 91 WARNING @ Sat, 15 Jan 2022 21:02:02: Too few paired peaks (91) 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, 15 Jan 2022 21:02:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.10_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/SRX8952632/SRX8952632.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:02:06: 6000000 INFO @ Sat, 15 Jan 2022 21:02:12: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:02:17: 8000000 INFO @ Sat, 15 Jan 2022 21:02:22: 9000000 INFO @ Sat, 15 Jan 2022 21:02:26: #1 tag size is determined as 41 bps INFO @ Sat, 15 Jan 2022 21:02:26: #1 tag size = 41 INFO @ Sat, 15 Jan 2022 21:02:26: #1 total tags in treatment: 3424996 INFO @ Sat, 15 Jan 2022 21:02:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:02:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 21:02:26: #1 tags after filtering in treatment: 2909727 INFO @ Sat, 15 Jan 2022 21:02:26: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 21:02:26: #1 finished! INFO @ Sat, 15 Jan 2022 21:02:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:02:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:02:26: #2 number of paired peaks: 91 WARNING @ Sat, 15 Jan 2022 21:02:26: Too few paired peaks (91) 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, 15 Jan 2022 21:02:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.20_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/SRX8952632/SRX8952632.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952632/SRX8952632.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling