Job ID = 12531636 SRX = SRX4555016 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11063938 spots for SRR7696706/SRR7696706.sra Written 11063938 spots for SRR7696706/SRR7696706.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: 00:17:11 11063938 reads; of these: 11063938 (100.00%) were paired; of these: 558744 (5.05%) aligned concordantly 0 times 5146119 (46.51%) aligned concordantly exactly 1 time 5359075 (48.44%) aligned concordantly >1 times ---- 558744 pairs aligned concordantly 0 times; of these: 42050 (7.53%) aligned discordantly 1 time ---- 516694 pairs aligned 0 times concordantly or discordantly; of these: 1033388 mates make up the pairs; of these: 759632 (73.51%) aligned 0 times 135295 (13.09%) aligned exactly 1 time 138461 (13.40%) aligned >1 times 96.57% overall alignment rate Time searching: 00:17:11 Overall time: 00:17:12 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 16 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] 2063409 / 4988807 = 0.4136 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:12:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.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, 17 Apr 2021 09:12:09: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:12:09: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:12:15: 1000000 INFO @ Sat, 17 Apr 2021 09:12:21: 2000000 INFO @ Sat, 17 Apr 2021 09:12:26: 3000000 INFO @ Sat, 17 Apr 2021 09:12:32: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:12:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.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, 17 Apr 2021 09:12:39: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:12:39: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:12:39: 5000000 INFO @ Sat, 17 Apr 2021 09:12:45: 6000000 INFO @ Sat, 17 Apr 2021 09:12:46: 1000000 INFO @ Sat, 17 Apr 2021 09:12:52: 7000000 INFO @ Sat, 17 Apr 2021 09:12:52: 2000000 INFO @ Sat, 17 Apr 2021 09:12:57: 8000000 INFO @ Sat, 17 Apr 2021 09:12:59: 3000000 INFO @ Sat, 17 Apr 2021 09:13:04: 9000000 INFO @ Sat, 17 Apr 2021 09:13:06: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:13:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.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, 17 Apr 2021 09:13:09: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:13:09: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:13:10: 10000000 INFO @ Sat, 17 Apr 2021 09:13:14: 5000000 INFO @ Sat, 17 Apr 2021 09:13:16: 1000000 INFO @ Sat, 17 Apr 2021 09:13:17: 11000000 INFO @ Sat, 17 Apr 2021 09:13:21: 6000000 INFO @ Sat, 17 Apr 2021 09:13:23: 12000000 INFO @ Sat, 17 Apr 2021 09:13:24: 2000000 INFO @ Sat, 17 Apr 2021 09:13:28: 7000000 INFO @ Sat, 17 Apr 2021 09:13:30: 13000000 INFO @ Sat, 17 Apr 2021 09:13:31: 3000000 INFO @ Sat, 17 Apr 2021 09:13:35: 8000000 INFO @ Sat, 17 Apr 2021 09:13:37: 14000000 INFO @ Sat, 17 Apr 2021 09:13:38: 4000000 INFO @ Sat, 17 Apr 2021 09:13:42: 9000000 INFO @ Sat, 17 Apr 2021 09:13:44: 15000000 INFO @ Sat, 17 Apr 2021 09:13:45: 5000000 INFO @ Sat, 17 Apr 2021 09:13:49: 10000000 INFO @ Sat, 17 Apr 2021 09:13:52: 16000000 INFO @ Sat, 17 Apr 2021 09:13:53: 6000000 INFO @ Sat, 17 Apr 2021 09:13:56: 11000000 INFO @ Sat, 17 Apr 2021 09:14:00: 17000000 INFO @ Sat, 17 Apr 2021 09:14:01: 7000000 INFO @ Sat, 17 Apr 2021 09:14:02: #1 tag size is determined as 92 bps INFO @ Sat, 17 Apr 2021 09:14:02: #1 tag size = 92 INFO @ Sat, 17 Apr 2021 09:14:02: #1 total tags in treatment: 8443816 INFO @ Sat, 17 Apr 2021 09:14:02: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:14:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:14:02: #1 tags after filtering in treatment: 2369785 INFO @ Sat, 17 Apr 2021 09:14:02: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:14:02: #1 finished! INFO @ Sat, 17 Apr 2021 09:14:02: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:14:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:14:02: #2 number of paired peaks: 81 WARNING @ Sat, 17 Apr 2021 09:14:02: Too few paired peaks (81) 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, 17 Apr 2021 09:14:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.05_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/SRX4555016/SRX4555016.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:14:03: 12000000 INFO @ Sat, 17 Apr 2021 09:14:07: 8000000 INFO @ Sat, 17 Apr 2021 09:14:08: 13000000 INFO @ Sat, 17 Apr 2021 09:14:12: 9000000 INFO @ Sat, 17 Apr 2021 09:14:15: 14000000 INFO @ Sat, 17 Apr 2021 09:14:18: 10000000 INFO @ Sat, 17 Apr 2021 09:14:21: 15000000 INFO @ Sat, 17 Apr 2021 09:14:24: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:14:27: 16000000 INFO @ Sat, 17 Apr 2021 09:14:30: 12000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:14:34: 17000000 INFO @ Sat, 17 Apr 2021 09:14:36: #1 tag size is determined as 92 bps INFO @ Sat, 17 Apr 2021 09:14:36: #1 tag size = 92 INFO @ Sat, 17 Apr 2021 09:14:36: #1 total tags in treatment: 8443816 INFO @ Sat, 17 Apr 2021 09:14:36: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:14:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:14:36: #1 tags after filtering in treatment: 2369785 INFO @ Sat, 17 Apr 2021 09:14:36: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:14:36: #1 finished! INFO @ Sat, 17 Apr 2021 09:14:36: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:14:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:14:36: 13000000 INFO @ Sat, 17 Apr 2021 09:14:36: #2 number of paired peaks: 81 WARNING @ Sat, 17 Apr 2021 09:14:36: Too few paired peaks (81) 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, 17 Apr 2021 09:14:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.10_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/SRX4555016/SRX4555016.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:14:42: 14000000 INFO @ Sat, 17 Apr 2021 09:14:48: 15000000 INFO @ Sat, 17 Apr 2021 09:14:54: 16000000 INFO @ Sat, 17 Apr 2021 09:15:00: 17000000 INFO @ Sat, 17 Apr 2021 09:15:02: #1 tag size is determined as 92 bps INFO @ Sat, 17 Apr 2021 09:15:02: #1 tag size = 92 INFO @ Sat, 17 Apr 2021 09:15:02: #1 total tags in treatment: 8443816 INFO @ Sat, 17 Apr 2021 09:15:02: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:15:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:15:02: #1 tags after filtering in treatment: 2369785 INFO @ Sat, 17 Apr 2021 09:15:02: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:15:02: #1 finished! INFO @ Sat, 17 Apr 2021 09:15:02: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:15:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:15:02: #2 number of paired peaks: 81 WARNING @ Sat, 17 Apr 2021 09:15:02: Too few paired peaks (81) 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, 17 Apr 2021 09:15:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.20_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/SRX4555016/SRX4555016.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555016/SRX4555016.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling