Job ID = 14521855 SRX = SRX9399096 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6513535 spots for SRR12935377/SRR12935377.sra Written 6513535 spots for SRR12935377/SRR12935377.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: 00:04:05 6513535 reads; of these: 6513535 (100.00%) were paired; of these: 602099 (9.24%) aligned concordantly 0 times 4759629 (73.07%) aligned concordantly exactly 1 time 1151807 (17.68%) aligned concordantly >1 times ---- 602099 pairs aligned concordantly 0 times; of these: 100755 (16.73%) aligned discordantly 1 time ---- 501344 pairs aligned 0 times concordantly or discordantly; of these: 1002688 mates make up the pairs; of these: 729543 (72.76%) aligned 0 times 187237 (18.67%) aligned exactly 1 time 85908 (8.57%) aligned >1 times 94.40% overall alignment rate Time searching: 00:04:05 Overall time: 00:04:05 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] 1013451 / 5999803 = 0.1689 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 21:51:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.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 21:51:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:51:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:51:43: 1000000 INFO @ Sat, 15 Jan 2022 21:51:50: 2000000 INFO @ Sat, 15 Jan 2022 21:51:56: 3000000 INFO @ Sat, 15 Jan 2022 21:52:03: 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 21:52:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.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 21:52:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:52:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:52:10: 5000000 INFO @ Sat, 15 Jan 2022 21:52:13: 1000000 INFO @ Sat, 15 Jan 2022 21:52:17: 6000000 INFO @ Sat, 15 Jan 2022 21:52:20: 2000000 INFO @ Sat, 15 Jan 2022 21:52:24: 7000000 INFO @ Sat, 15 Jan 2022 21:52:27: 3000000 INFO @ Sat, 15 Jan 2022 21:52:31: 8000000 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 21:52:34: 4000000 INFO @ Sat, 15 Jan 2022 21:52:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.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 21:52:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:52:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:52:38: 9000000 INFO @ Sat, 15 Jan 2022 21:52:41: 5000000 INFO @ Sat, 15 Jan 2022 21:52:43: 1000000 INFO @ Sat, 15 Jan 2022 21:52:45: 10000000 INFO @ Sat, 15 Jan 2022 21:52:47: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:52:47: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:52:47: #1 total tags in treatment: 4901724 INFO @ Sat, 15 Jan 2022 21:52:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:52:47: #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 21:52:47: #1 tags after filtering in treatment: 3279254 INFO @ Sat, 15 Jan 2022 21:52:47: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:52:47: #1 finished! INFO @ Sat, 15 Jan 2022 21:52:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:52:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:52:47: #2 number of paired peaks: 11 WARNING @ Sat, 15 Jan 2022 21:52:47: Too few paired peaks (11) 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 21:52:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.05_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/SRX9399096/SRX9399096.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:52:48: 6000000 INFO @ Sat, 15 Jan 2022 21:52:50: 2000000 INFO @ Sat, 15 Jan 2022 21:52:55: 7000000 INFO @ Sat, 15 Jan 2022 21:52:57: 3000000 INFO @ Sat, 15 Jan 2022 21:53:01: 8000000 INFO @ Sat, 15 Jan 2022 21:53:04: 4000000 INFO @ Sat, 15 Jan 2022 21:53:08: 9000000 INFO @ Sat, 15 Jan 2022 21:53:11: 5000000 INFO @ Sat, 15 Jan 2022 21:53:15: 10000000 INFO @ Sat, 15 Jan 2022 21:53:17: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:53:17: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:53:17: #1 total tags in treatment: 4901724 INFO @ Sat, 15 Jan 2022 21:53:17: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:17: #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 21:53:17: #1 tags after filtering in treatment: 3279254 INFO @ Sat, 15 Jan 2022 21:53:17: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:53:17: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:17: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:18: #2 number of paired peaks: 11 WARNING @ Sat, 15 Jan 2022 21:53:18: Too few paired peaks (11) 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 21:53:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.10_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/SRX9399096/SRX9399096.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:53:18: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:53:25: 7000000 INFO @ Sat, 15 Jan 2022 21:53:32: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:53:39: 9000000 INFO @ Sat, 15 Jan 2022 21:53:46: 10000000 INFO @ Sat, 15 Jan 2022 21:53:48: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:53:48: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:53:48: #1 total tags in treatment: 4901724 INFO @ Sat, 15 Jan 2022 21:53:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:48: #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 21:53:48: #1 tags after filtering in treatment: 3279254 INFO @ Sat, 15 Jan 2022 21:53:48: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:53:48: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:48: #2 number of paired peaks: 11 WARNING @ Sat, 15 Jan 2022 21:53:48: Too few paired peaks (11) 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 21:53:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.20_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/SRX9399096/SRX9399096.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399096/SRX9399096.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling