Job ID = 14521810 SRX = SRX9399072 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5679130 spots for SRR12935353/SRR12935353.sra Written 5679130 spots for SRR12935353/SRR12935353.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: 00:03:30 5679130 reads; of these: 5679130 (100.00%) were paired; of these: 788267 (13.88%) aligned concordantly 0 times 4309504 (75.88%) aligned concordantly exactly 1 time 581359 (10.24%) aligned concordantly >1 times ---- 788267 pairs aligned concordantly 0 times; of these: 166466 (21.12%) aligned discordantly 1 time ---- 621801 pairs aligned 0 times concordantly or discordantly; of these: 1243602 mates make up the pairs; of these: 948673 (76.28%) aligned 0 times 223422 (17.97%) aligned exactly 1 time 71507 (5.75%) aligned >1 times 91.65% overall alignment rate Time searching: 00:03:30 Overall time: 00:03:30 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_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] 387732 / 4985324 = 0.0778 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 21:44:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.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 21:44:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:44:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:01: 1000000 INFO @ Sat, 15 Jan 2022 21:45:05: 2000000 INFO @ Sat, 15 Jan 2022 21:45:10: 3000000 INFO @ Sat, 15 Jan 2022 21:45:14: 4000000 INFO @ Sat, 15 Jan 2022 21:45:19: 5000000 INFO @ Sat, 15 Jan 2022 21:45:24: 6000000 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 21:45:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.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 21:45:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:28: 7000000 INFO @ Sat, 15 Jan 2022 21:45:33: 1000000 INFO @ Sat, 15 Jan 2022 21:45:33: 8000000 INFO @ Sat, 15 Jan 2022 21:45:37: 9000000 INFO @ Sat, 15 Jan 2022 21:45:39: 2000000 INFO @ Sat, 15 Jan 2022 21:45:40: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:45:40: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:45:40: #1 total tags in treatment: 4505462 INFO @ Sat, 15 Jan 2022 21:45:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:45:40: #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 21:45:41: #1 tags after filtering in treatment: 3167484 INFO @ Sat, 15 Jan 2022 21:45:41: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:45:41: #1 finished! INFO @ Sat, 15 Jan 2022 21:45:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:45:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:45:41: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:45:41: 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 21:45:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.05_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/SRX9399072/SRX9399072.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:45:45: 3000000 INFO @ Sat, 15 Jan 2022 21:45:51: 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 21:45:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.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 21:45:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:57: 5000000 INFO @ Sat, 15 Jan 2022 21:46:03: 1000000 INFO @ Sat, 15 Jan 2022 21:46:03: 6000000 INFO @ Sat, 15 Jan 2022 21:46:09: 2000000 INFO @ Sat, 15 Jan 2022 21:46:10: 7000000 INFO @ Sat, 15 Jan 2022 21:46:16: 3000000 INFO @ Sat, 15 Jan 2022 21:46:16: 8000000 INFO @ Sat, 15 Jan 2022 21:46:22: 4000000 INFO @ Sat, 15 Jan 2022 21:46:23: 9000000 INFO @ Sat, 15 Jan 2022 21:46:26: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:46:26: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:46:26: #1 total tags in treatment: 4505462 INFO @ Sat, 15 Jan 2022 21:46:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:26: #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 21:46:27: #1 tags after filtering in treatment: 3167484 INFO @ Sat, 15 Jan 2022 21:46:27: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:46:27: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:27: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:46:27: 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 21:46:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.10_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/SRX9399072/SRX9399072.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:46:28: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:46:35: 6000000 INFO @ Sat, 15 Jan 2022 21:46:41: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:46:47: 8000000 INFO @ Sat, 15 Jan 2022 21:46:53: 9000000 INFO @ Sat, 15 Jan 2022 21:46:57: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:46:57: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:46:57: #1 total tags in treatment: 4505462 INFO @ Sat, 15 Jan 2022 21:46:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:57: #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 21:46:57: #1 tags after filtering in treatment: 3167484 INFO @ Sat, 15 Jan 2022 21:46:57: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Jan 2022 21:46:57: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:57: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:46:57: 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 21:46:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.20_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/SRX9399072/SRX9399072.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399072/SRX9399072.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling