Job ID = 12531645 SRX = SRX4555024 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11683529 spots for SRR7696717/SRR7696717.sra Written 11683529 spots for SRR7696717/SRR7696717.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: 00:12:46 11683529 reads; of these: 11683529 (100.00%) were paired; of these: 692883 (5.93%) aligned concordantly 0 times 6299808 (53.92%) aligned concordantly exactly 1 time 4690838 (40.15%) aligned concordantly >1 times ---- 692883 pairs aligned concordantly 0 times; of these: 47217 (6.81%) aligned discordantly 1 time ---- 645666 pairs aligned 0 times concordantly or discordantly; of these: 1291332 mates make up the pairs; of these: 1020085 (78.99%) aligned 0 times 149391 (11.57%) aligned exactly 1 time 121856 (9.44%) aligned >1 times 95.63% overall alignment rate Time searching: 00:12:46 Overall time: 00:12:46 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_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] 1641133 / 4750535 = 0.3455 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 09:11:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.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 09:11:11: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:11:11: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:11:20: 1000000 INFO @ Sat, 17 Apr 2021 09:11:28: 2000000 INFO @ Sat, 17 Apr 2021 09:11:36: 3000000 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 09:11:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.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 09:11:41: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:11:41: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:11:45: 4000000 INFO @ Sat, 17 Apr 2021 09:11:49: 1000000 INFO @ Sat, 17 Apr 2021 09:11:54: 5000000 INFO @ Sat, 17 Apr 2021 09:11:57: 2000000 INFO @ Sat, 17 Apr 2021 09:12:02: 6000000 INFO @ Sat, 17 Apr 2021 09:12:04: 3000000 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 09:12:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.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 09:12:11: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:12:11: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:12:11: 7000000 INFO @ Sat, 17 Apr 2021 09:12:12: 4000000 INFO @ Sat, 17 Apr 2021 09:12:19: 5000000 INFO @ Sat, 17 Apr 2021 09:12:20: 8000000 INFO @ Sat, 17 Apr 2021 09:12:21: 1000000 INFO @ Sat, 17 Apr 2021 09:12:27: 6000000 INFO @ Sat, 17 Apr 2021 09:12:29: 9000000 INFO @ Sat, 17 Apr 2021 09:12:30: 2000000 INFO @ Sat, 17 Apr 2021 09:12:35: 7000000 INFO @ Sat, 17 Apr 2021 09:12:37: 10000000 INFO @ Sat, 17 Apr 2021 09:12:39: 3000000 INFO @ Sat, 17 Apr 2021 09:12:43: 8000000 INFO @ Sat, 17 Apr 2021 09:12:46: 11000000 INFO @ Sat, 17 Apr 2021 09:12:48: 4000000 INFO @ Sat, 17 Apr 2021 09:12:50: 9000000 INFO @ Sat, 17 Apr 2021 09:12:54: 12000000 INFO @ Sat, 17 Apr 2021 09:12:57: 5000000 INFO @ Sat, 17 Apr 2021 09:12:57: 10000000 INFO @ Sat, 17 Apr 2021 09:13:03: 13000000 INFO @ Sat, 17 Apr 2021 09:13:05: 11000000 INFO @ Sat, 17 Apr 2021 09:13:06: 6000000 INFO @ Sat, 17 Apr 2021 09:13:11: 14000000 INFO @ Sat, 17 Apr 2021 09:13:12: 12000000 INFO @ Sat, 17 Apr 2021 09:13:15: 7000000 INFO @ Sat, 17 Apr 2021 09:13:19: 13000000 INFO @ Sat, 17 Apr 2021 09:13:20: 15000000 INFO @ Sat, 17 Apr 2021 09:13:24: 8000000 INFO @ Sat, 17 Apr 2021 09:13:27: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:13:29: 16000000 INFO @ Sat, 17 Apr 2021 09:13:33: 9000000 INFO @ Sat, 17 Apr 2021 09:13:34: 15000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:13:38: 17000000 INFO @ Sat, 17 Apr 2021 09:13:41: 10000000 INFO @ Sat, 17 Apr 2021 09:13:42: 16000000 INFO @ Sat, 17 Apr 2021 09:13:47: 18000000 INFO @ Sat, 17 Apr 2021 09:13:50: 17000000 INFO @ Sat, 17 Apr 2021 09:13:50: 11000000 INFO @ Sat, 17 Apr 2021 09:13:56: 19000000 INFO @ Sat, 17 Apr 2021 09:13:57: #1 tag size is determined as 77 bps INFO @ Sat, 17 Apr 2021 09:13:57: #1 tag size = 77 INFO @ Sat, 17 Apr 2021 09:13:57: #1 total tags in treatment: 9351998 INFO @ Sat, 17 Apr 2021 09:13:57: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:13:57: #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 09:13:57: #1 tags after filtering in treatment: 2609300 INFO @ Sat, 17 Apr 2021 09:13:57: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:13:57: #1 finished! INFO @ Sat, 17 Apr 2021 09:13:57: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:13:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:13:57: #2 number of paired peaks: 77 WARNING @ Sat, 17 Apr 2021 09:13:57: Too few paired peaks (77) 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 09:13:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:13:58: 18000000 INFO @ Sat, 17 Apr 2021 09:13:59: 12000000 INFO @ Sat, 17 Apr 2021 09:14:06: 19000000 INFO @ Sat, 17 Apr 2021 09:14:06: #1 tag size is determined as 77 bps INFO @ Sat, 17 Apr 2021 09:14:06: #1 tag size = 77 INFO @ Sat, 17 Apr 2021 09:14:06: #1 total tags in treatment: 9351998 INFO @ Sat, 17 Apr 2021 09:14:06: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:14:06: #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 09:14:06: #1 tags after filtering in treatment: 2609300 INFO @ Sat, 17 Apr 2021 09:14:06: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:14:06: #1 finished! INFO @ Sat, 17 Apr 2021 09:14:06: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:14:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:14:07: #2 number of paired peaks: 77 WARNING @ Sat, 17 Apr 2021 09:14:07: Too few paired peaks (77) 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 09:14:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.10_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/SRX4555024/SRX4555024.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:14:07: 13000000 INFO @ Sat, 17 Apr 2021 09:14:15: 14000000 INFO @ Sat, 17 Apr 2021 09:14:23: 15000000 INFO @ Sat, 17 Apr 2021 09:14:32: 16000000 INFO @ Sat, 17 Apr 2021 09:14:40: 17000000 INFO @ Sat, 17 Apr 2021 09:14:49: 18000000 INFO @ Sat, 17 Apr 2021 09:14:57: 19000000 INFO @ Sat, 17 Apr 2021 09:14:58: #1 tag size is determined as 77 bps INFO @ Sat, 17 Apr 2021 09:14:58: #1 tag size = 77 INFO @ Sat, 17 Apr 2021 09:14:58: #1 total tags in treatment: 9351998 INFO @ Sat, 17 Apr 2021 09:14:58: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:14:58: #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 09:14:58: #1 tags after filtering in treatment: 2609300 INFO @ Sat, 17 Apr 2021 09:14:58: #1 Redundant rate of treatment: 0.72 INFO @ Sat, 17 Apr 2021 09:14:58: #1 finished! INFO @ Sat, 17 Apr 2021 09:14:58: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:14:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:14:58: #2 number of paired peaks: 77 WARNING @ Sat, 17 Apr 2021 09:14:58: Too few paired peaks (77) 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 09:14:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.20_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/SRX4555024/SRX4555024.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555024/SRX4555024.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling