Job ID = 12531659 SRX = SRX4555033 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6379305 spots for SRR7696727/SRR7696727.sra Written 6379305 spots for SRR7696727/SRR7696727.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: 00:11:53 6379305 reads; of these: 6379305 (100.00%) were paired; of these: 364542 (5.71%) aligned concordantly 0 times 3014609 (47.26%) aligned concordantly exactly 1 time 3000154 (47.03%) aligned concordantly >1 times ---- 364542 pairs aligned concordantly 0 times; of these: 23532 (6.46%) aligned discordantly 1 time ---- 341010 pairs aligned 0 times concordantly or discordantly; of these: 682020 mates make up the pairs; of these: 541803 (79.44%) aligned 0 times 66894 (9.81%) aligned exactly 1 time 73323 (10.75%) aligned >1 times 95.75% overall alignment rate Time searching: 00:11:53 Overall time: 00:11:53 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] 941304 / 2877813 = 0.3271 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 09:13:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.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 09:13:18: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:13:18: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:13:29: 1000000 INFO @ Sat, 17 Apr 2021 09:13:40: 2000000 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 09:13:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.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 09:13:48: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:13:48: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:13:52: 3000000 INFO @ Sat, 17 Apr 2021 09:14:01: 1000000 INFO @ Sat, 17 Apr 2021 09:14:04: 4000000 INFO @ Sat, 17 Apr 2021 09:14:13: 2000000 INFO @ Sat, 17 Apr 2021 09:14:15: 5000000 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 09:14:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.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 09:14:18: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:14:18: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:14:26: 3000000 INFO @ Sat, 17 Apr 2021 09:14:27: 6000000 INFO @ Sat, 17 Apr 2021 09:14:30: 1000000 INFO @ Sat, 17 Apr 2021 09:14:38: 4000000 INFO @ Sat, 17 Apr 2021 09:14:38: 7000000 INFO @ Sat, 17 Apr 2021 09:14:42: 2000000 INFO @ Sat, 17 Apr 2021 09:14:50: 5000000 INFO @ Sat, 17 Apr 2021 09:14:50: 8000000 INFO @ Sat, 17 Apr 2021 09:14:54: 3000000 INFO @ Sat, 17 Apr 2021 09:15:01: 6000000 INFO @ Sat, 17 Apr 2021 09:15:02: 9000000 INFO @ Sat, 17 Apr 2021 09:15:06: 4000000 INFO @ Sat, 17 Apr 2021 09:15:12: 7000000 INFO @ Sat, 17 Apr 2021 09:15:14: 10000000 INFO @ Sat, 17 Apr 2021 09:15:17: 5000000 INFO @ Sat, 17 Apr 2021 09:15:18: #1 tag size is determined as 90 bps INFO @ Sat, 17 Apr 2021 09:15:18: #1 tag size = 90 INFO @ Sat, 17 Apr 2021 09:15:18: #1 total tags in treatment: 5074216 INFO @ Sat, 17 Apr 2021 09:15:18: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:15:18: #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 09:15:18: #1 tags after filtering in treatment: 1878630 INFO @ Sat, 17 Apr 2021 09:15:18: #1 Redundant rate of treatment: 0.63 INFO @ Sat, 17 Apr 2021 09:15:18: #1 finished! INFO @ Sat, 17 Apr 2021 09:15:18: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:15:18: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:15:18: #2 number of paired peaks: 88 WARNING @ Sat, 17 Apr 2021 09:15:18: Too few paired peaks (88) 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 09:15:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.05_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/SRX4555033/SRX4555033.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:15:23: 8000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:15:28: 6000000 INFO @ Sat, 17 Apr 2021 09:15:35: 9000000 INFO @ Sat, 17 Apr 2021 09:15:38: 7000000 INFO @ Sat, 17 Apr 2021 09:15:47: 10000000 INFO @ Sat, 17 Apr 2021 09:15:49: 8000000 INFO @ Sat, 17 Apr 2021 09:15:51: #1 tag size is determined as 90 bps INFO @ Sat, 17 Apr 2021 09:15:51: #1 tag size = 90 INFO @ Sat, 17 Apr 2021 09:15:51: #1 total tags in treatment: 5074216 INFO @ Sat, 17 Apr 2021 09:15:51: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:15:51: #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 09:15:51: #1 tags after filtering in treatment: 1878630 INFO @ Sat, 17 Apr 2021 09:15:51: #1 Redundant rate of treatment: 0.63 INFO @ Sat, 17 Apr 2021 09:15:51: #1 finished! INFO @ Sat, 17 Apr 2021 09:15:51: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:15:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:15:51: #2 number of paired peaks: 88 WARNING @ Sat, 17 Apr 2021 09:15:51: Too few paired peaks (88) 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 09:15:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.10_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/SRX4555033/SRX4555033.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:15:59: 9000000 INFO @ Sat, 17 Apr 2021 09:16:09: 10000000 INFO @ Sat, 17 Apr 2021 09:16:12: #1 tag size is determined as 90 bps INFO @ Sat, 17 Apr 2021 09:16:12: #1 tag size = 90 INFO @ Sat, 17 Apr 2021 09:16:12: #1 total tags in treatment: 5074216 INFO @ Sat, 17 Apr 2021 09:16:12: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:16:12: #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 09:16:12: #1 tags after filtering in treatment: 1878630 INFO @ Sat, 17 Apr 2021 09:16:12: #1 Redundant rate of treatment: 0.63 INFO @ Sat, 17 Apr 2021 09:16:12: #1 finished! INFO @ Sat, 17 Apr 2021 09:16:12: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:16:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:16:12: #2 number of paired peaks: 88 WARNING @ Sat, 17 Apr 2021 09:16:12: Too few paired peaks (88) 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 09:16:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.20_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/SRX4555033/SRX4555033.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555033/SRX4555033.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling