Job ID = 14520242 SRX = SRX9346314 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5118636 spots for SRR12880352/SRR12880352.sra Written 5118636 spots for SRR12880352/SRR12880352.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: 00:04:51 5118636 reads; of these: 5118636 (100.00%) were paired; of these: 93899 (1.83%) aligned concordantly 0 times 4452832 (86.99%) aligned concordantly exactly 1 time 571905 (11.17%) aligned concordantly >1 times ---- 93899 pairs aligned concordantly 0 times; of these: 29758 (31.69%) aligned discordantly 1 time ---- 64141 pairs aligned 0 times concordantly or discordantly; of these: 128282 mates make up the pairs; of these: 85828 (66.91%) aligned 0 times 30152 (23.50%) aligned exactly 1 time 12302 (9.59%) aligned >1 times 99.16% overall alignment rate Time searching: 00:04:51 Overall time: 00:04:51 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] 392040 / 5002408 = 0.0784 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 18:54:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.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 18:54:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:54:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:55:05: 1000000 INFO @ Sat, 15 Jan 2022 18:55:12: 2000000 INFO @ Sat, 15 Jan 2022 18:55:18: 3000000 INFO @ Sat, 15 Jan 2022 18:55:25: 4000000 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 18:55:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.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 18:55:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:55:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:55:31: 5000000 INFO @ Sat, 15 Jan 2022 18:55:35: 1000000 INFO @ Sat, 15 Jan 2022 18:55:38: 6000000 INFO @ Sat, 15 Jan 2022 18:55:41: 2000000 INFO @ Sat, 15 Jan 2022 18:55:45: 7000000 INFO @ Sat, 15 Jan 2022 18:55:47: 3000000 INFO @ Sat, 15 Jan 2022 18:55:52: 8000000 INFO @ Sat, 15 Jan 2022 18:55:52: 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 18:55:58: 9000000 INFO @ Sat, 15 Jan 2022 18:55:58: 5000000 INFO @ Sat, 15 Jan 2022 18:55:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.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 18:55:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:55:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:56:01: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 18:56:01: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 18:56:01: #1 total tags in treatment: 4632826 INFO @ Sat, 15 Jan 2022 18:56:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:56:01: #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 18:56:01: #1 tags after filtering in treatment: 3178896 INFO @ Sat, 15 Jan 2022 18:56:01: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 18:56:01: #1 finished! INFO @ Sat, 15 Jan 2022 18:56:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:56:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:56:01: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 18:56:01: Too few paired peaks (2) 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 18:56:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.05_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/SRX9346314/SRX9346314.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:56:04: 6000000 INFO @ Sat, 15 Jan 2022 18:56:05: 1000000 INFO @ Sat, 15 Jan 2022 18:56:10: 7000000 INFO @ Sat, 15 Jan 2022 18:56:10: 2000000 INFO @ Sat, 15 Jan 2022 18:56:16: 8000000 INFO @ Sat, 15 Jan 2022 18:56:16: 3000000 INFO @ Sat, 15 Jan 2022 18:56:22: 9000000 INFO @ Sat, 15 Jan 2022 18:56:22: 4000000 INFO @ Sat, 15 Jan 2022 18:56:24: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 18:56:24: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 18:56:24: #1 total tags in treatment: 4632826 INFO @ Sat, 15 Jan 2022 18:56:24: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:56:24: #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 18:56:24: #1 tags after filtering in treatment: 3178896 INFO @ Sat, 15 Jan 2022 18:56:24: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 18:56:24: #1 finished! INFO @ Sat, 15 Jan 2022 18:56:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:56:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:56:24: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 18:56:24: Too few paired peaks (2) 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 18:56:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.10_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/SRX9346314/SRX9346314.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:56:27: 5000000 INFO @ Sat, 15 Jan 2022 18:56:33: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:56:38: 7000000 INFO @ Sat, 15 Jan 2022 18:56:43: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:56:49: 9000000 INFO @ Sat, 15 Jan 2022 18:56:51: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 18:56:51: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 18:56:51: #1 total tags in treatment: 4632826 INFO @ Sat, 15 Jan 2022 18:56:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:56:51: #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 18:56:51: #1 tags after filtering in treatment: 3178896 INFO @ Sat, 15 Jan 2022 18:56:51: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 18:56:51: #1 finished! INFO @ Sat, 15 Jan 2022 18:56:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:56:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:56:51: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 18:56:51: Too few paired peaks (2) 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 18:56:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.20_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/SRX9346314/SRX9346314.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346314/SRX9346314.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling