Job ID = 14521576 SRX = SRX9493779 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5017379 spots for SRR13043883/SRR13043883.sra Written 5017379 spots for SRR13043883/SRR13043883.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: 00:05:14 5017379 reads; of these: 5017379 (100.00%) were paired; of these: 266614 (5.31%) aligned concordantly 0 times 4058052 (80.88%) aligned concordantly exactly 1 time 692713 (13.81%) aligned concordantly >1 times ---- 266614 pairs aligned concordantly 0 times; of these: 86625 (32.49%) aligned discordantly 1 time ---- 179989 pairs aligned 0 times concordantly or discordantly; of these: 359978 mates make up the pairs; of these: 280385 (77.89%) aligned 0 times 36018 (10.01%) aligned exactly 1 time 43575 (12.10%) aligned >1 times 97.21% overall alignment rate Time searching: 00:05:14 Overall time: 00:05:14 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] 155078 / 4832688 = 0.0321 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 21:19:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.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 21:19:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:19:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:19:28: 1000000 INFO @ Sat, 15 Jan 2022 21:19:34: 2000000 INFO @ Sat, 15 Jan 2022 21:19:39: 3000000 INFO @ Sat, 15 Jan 2022 21:19:44: 4000000 INFO @ Sat, 15 Jan 2022 21:19:50: 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 21:19:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.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 21:19:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:19:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:19:55: 6000000 INFO @ Sat, 15 Jan 2022 21:19:58: 1000000 INFO @ Sat, 15 Jan 2022 21:20:01: 7000000 INFO @ Sat, 15 Jan 2022 21:20:04: 2000000 INFO @ Sat, 15 Jan 2022 21:20:07: 8000000 INFO @ Sat, 15 Jan 2022 21:20:10: 3000000 INFO @ Sat, 15 Jan 2022 21:20:13: 9000000 INFO @ Sat, 15 Jan 2022 21:20:16: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:20:16: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:20:16: #1 total tags in treatment: 4597148 INFO @ Sat, 15 Jan 2022 21:20:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:20:16: #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 21:20:16: #1 tags after filtering in treatment: 3740419 INFO @ Sat, 15 Jan 2022 21:20:16: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 21:20:16: #1 finished! INFO @ Sat, 15 Jan 2022 21:20:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:20:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:20:16: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 21:20:16: Too few paired peaks (29) 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 21:20:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 21:20:16: 4000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 21:20:22: 5000000 INFO @ Sat, 15 Jan 2022 21:20:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.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 21:20:22: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:20:22: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:20:28: 6000000 INFO @ Sat, 15 Jan 2022 21:20:28: 1000000 INFO @ Sat, 15 Jan 2022 21:20:34: 7000000 INFO @ Sat, 15 Jan 2022 21:20:34: 2000000 INFO @ Sat, 15 Jan 2022 21:20:40: 8000000 INFO @ Sat, 15 Jan 2022 21:20:41: 3000000 INFO @ Sat, 15 Jan 2022 21:20:45: 9000000 INFO @ Sat, 15 Jan 2022 21:20:48: 4000000 INFO @ Sat, 15 Jan 2022 21:20:48: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:20:48: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:20:48: #1 total tags in treatment: 4597148 INFO @ Sat, 15 Jan 2022 21:20:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:20:48: #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 21:20:48: #1 tags after filtering in treatment: 3740419 INFO @ Sat, 15 Jan 2022 21:20:48: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 21:20:48: #1 finished! INFO @ Sat, 15 Jan 2022 21:20:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:20:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:20:48: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 21:20:48: Too few paired peaks (29) 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 21:20:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.10_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/SRX9493779/SRX9493779.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:20:54: 5000000 INFO @ Sat, 15 Jan 2022 21:21:00: 6000000 INFO @ Sat, 15 Jan 2022 21:21:05: 7000000 INFO @ Sat, 15 Jan 2022 21:21:10: 8000000 INFO @ Sat, 15 Jan 2022 21:21:15: 9000000 INFO @ Sat, 15 Jan 2022 21:21:18: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:21:18: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:21:18: #1 total tags in treatment: 4597148 INFO @ Sat, 15 Jan 2022 21:21:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:21:18: #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 21:21:18: #1 tags after filtering in treatment: 3740419 INFO @ Sat, 15 Jan 2022 21:21:18: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 21:21:18: #1 finished! INFO @ Sat, 15 Jan 2022 21:21:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:21:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:21:18: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 21:21:18: Too few paired peaks (29) 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 21:21:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.20_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/SRX9493779/SRX9493779.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493779/SRX9493779.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。