Job ID = 14520447 SRX = SRX3659047 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9697548 spots for SRR6682744/SRR6682744.sra Written 9697548 spots for SRR6682744/SRR6682744.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: 00:08:58 9697548 reads; of these: 9697548 (100.00%) were paired; of these: 913698 (9.42%) aligned concordantly 0 times 8183403 (84.39%) aligned concordantly exactly 1 time 600447 (6.19%) aligned concordantly >1 times ---- 913698 pairs aligned concordantly 0 times; of these: 587468 (64.30%) aligned discordantly 1 time ---- 326230 pairs aligned 0 times concordantly or discordantly; of these: 652460 mates make up the pairs; of these: 470669 (72.14%) aligned 0 times 93028 (14.26%) aligned exactly 1 time 88763 (13.60%) aligned >1 times 97.57% overall alignment rate Time searching: 00:08:58 Overall time: 00:08:58 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] 803364 / 9261512 = 0.0867 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 19:24:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.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 19:24:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:24:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:24:52: 1000000 INFO @ Sat, 15 Jan 2022 19:24:58: 2000000 INFO @ Sat, 15 Jan 2022 19:25:03: 3000000 INFO @ Sat, 15 Jan 2022 19:25:08: 4000000 INFO @ Sat, 15 Jan 2022 19:25:14: 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 19:25:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.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 19:25:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:25:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:25:19: 6000000 INFO @ Sat, 15 Jan 2022 19:25:23: 1000000 INFO @ Sat, 15 Jan 2022 19:25:25: 7000000 INFO @ Sat, 15 Jan 2022 19:25:30: 2000000 INFO @ Sat, 15 Jan 2022 19:25:32: 8000000 INFO @ Sat, 15 Jan 2022 19:25:37: 3000000 INFO @ Sat, 15 Jan 2022 19:25:38: 9000000 INFO @ Sat, 15 Jan 2022 19:25:43: 4000000 INFO @ Sat, 15 Jan 2022 19:25:43: 10000000 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 19:25:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.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 19:25:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:25:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:25:49: 11000000 INFO @ Sat, 15 Jan 2022 19:25:50: 5000000 INFO @ Sat, 15 Jan 2022 19:25:53: 1000000 INFO @ Sat, 15 Jan 2022 19:25:55: 12000000 INFO @ Sat, 15 Jan 2022 19:25:57: 6000000 INFO @ Sat, 15 Jan 2022 19:26:00: 2000000 INFO @ Sat, 15 Jan 2022 19:26:01: 13000000 INFO @ Sat, 15 Jan 2022 19:26:04: 7000000 INFO @ Sat, 15 Jan 2022 19:26:07: 3000000 INFO @ Sat, 15 Jan 2022 19:26:07: 14000000 INFO @ Sat, 15 Jan 2022 19:26:11: 8000000 INFO @ Sat, 15 Jan 2022 19:26:13: 15000000 INFO @ Sat, 15 Jan 2022 19:26:14: 4000000 INFO @ Sat, 15 Jan 2022 19:26:18: 9000000 INFO @ Sat, 15 Jan 2022 19:26:19: 16000000 INFO @ Sat, 15 Jan 2022 19:26:21: 5000000 INFO @ Sat, 15 Jan 2022 19:26:25: 10000000 INFO @ Sat, 15 Jan 2022 19:26:25: 17000000 INFO @ Sat, 15 Jan 2022 19:26:27: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:26:27: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:26:27: #1 total tags in treatment: 8002533 INFO @ Sat, 15 Jan 2022 19:26:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:26:27: #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 19:26:27: #1 tags after filtering in treatment: 4889059 INFO @ Sat, 15 Jan 2022 19:26:27: #1 Redundant rate of treatment: 0.39 INFO @ Sat, 15 Jan 2022 19:26:27: #1 finished! INFO @ Sat, 15 Jan 2022 19:26:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:26:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:26:27: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:26:27: Too few paired peaks (0) 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 19:26:27: Process for pairing-model is terminated! INFO @ Sat, 15 Jan 2022 19:26:28: 6000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.05_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/SRX3659047/SRX3659047.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:26:31: 11000000 INFO @ Sat, 15 Jan 2022 19:26:34: 7000000 INFO @ Sat, 15 Jan 2022 19:26:38: 12000000 INFO @ Sat, 15 Jan 2022 19:26:41: 8000000 INFO @ Sat, 15 Jan 2022 19:26:45: 13000000 INFO @ Sat, 15 Jan 2022 19:26:48: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:26:52: 14000000 INFO @ Sat, 15 Jan 2022 19:26:55: 10000000 INFO @ Sat, 15 Jan 2022 19:26:58: 15000000 INFO @ Sat, 15 Jan 2022 19:27:02: 11000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:27:05: 16000000 INFO @ Sat, 15 Jan 2022 19:27:08: 12000000 INFO @ Sat, 15 Jan 2022 19:27:12: 17000000 INFO @ Sat, 15 Jan 2022 19:27:14: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:27:14: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:27:14: #1 total tags in treatment: 8002533 INFO @ Sat, 15 Jan 2022 19:27:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:27:14: #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 19:27:14: #1 tags after filtering in treatment: 4889059 INFO @ Sat, 15 Jan 2022 19:27:14: #1 Redundant rate of treatment: 0.39 INFO @ Sat, 15 Jan 2022 19:27:14: #1 finished! INFO @ Sat, 15 Jan 2022 19:27:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:27:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:27:15: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:27:15: Too few paired peaks (0) 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 19:27:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.10_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/SRX3659047/SRX3659047.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:27:15: 13000000 INFO @ Sat, 15 Jan 2022 19:27:22: 14000000 INFO @ Sat, 15 Jan 2022 19:27:28: 15000000 INFO @ Sat, 15 Jan 2022 19:27:35: 16000000 INFO @ Sat, 15 Jan 2022 19:27:41: 17000000 INFO @ Sat, 15 Jan 2022 19:27:43: #1 tag size is determined as 101 bps INFO @ Sat, 15 Jan 2022 19:27:43: #1 tag size = 101 INFO @ Sat, 15 Jan 2022 19:27:43: #1 total tags in treatment: 8002533 INFO @ Sat, 15 Jan 2022 19:27:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:27:43: #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 19:27:44: #1 tags after filtering in treatment: 4889059 INFO @ Sat, 15 Jan 2022 19:27:44: #1 Redundant rate of treatment: 0.39 INFO @ Sat, 15 Jan 2022 19:27:44: #1 finished! INFO @ Sat, 15 Jan 2022 19:27:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:27:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:27:44: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:27:44: Too few paired peaks (0) 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 19:27:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.20_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/SRX3659047/SRX3659047.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659047/SRX3659047.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling