Job ID = 14520265 SRX = SRX8398447 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3016574 spots for SRR11848017/SRR11848017.sra Written 3016574 spots for SRR11848017/SRR11848017.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:54 3016574 reads; of these: 3016574 (100.00%) were paired; of these: 421789 (13.98%) aligned concordantly 0 times 1848119 (61.27%) aligned concordantly exactly 1 time 746666 (24.75%) aligned concordantly >1 times ---- 421789 pairs aligned concordantly 0 times; of these: 11628 (2.76%) aligned discordantly 1 time ---- 410161 pairs aligned 0 times concordantly or discordantly; of these: 820322 mates make up the pairs; of these: 792024 (96.55%) aligned 0 times 10458 (1.27%) aligned exactly 1 time 17840 (2.17%) aligned >1 times 86.87% overall alignment rate Time searching: 00:01:55 Overall time: 00:01:55 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] 522574 / 2604290 = 0.2007 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 18:51:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.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 18:51:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:51:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:51:39: 1000000 INFO @ Sat, 15 Jan 2022 18:51:46: 2000000 INFO @ Sat, 15 Jan 2022 18:51:54: 3000000 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 18:52:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.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 18:52:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:52:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:52:01: 4000000 INFO @ Sat, 15 Jan 2022 18:52:03: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 18:52:03: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 18:52:03: #1 total tags in treatment: 2072740 INFO @ Sat, 15 Jan 2022 18:52:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:52:03: #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 18:52:03: #1 tags after filtering in treatment: 1550622 INFO @ Sat, 15 Jan 2022 18:52:03: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 18:52:03: #1 finished! INFO @ Sat, 15 Jan 2022 18:52:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:52:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:52:03: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 18:52:03: Too few paired peaks (32) 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 18:52:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.05_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/SRX8398447/SRX8398447.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:52:11: 1000000 INFO @ Sat, 15 Jan 2022 18:52:21: 2000000 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 18:52:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.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 18:52:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:52:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:52:31: 3000000 INFO @ Sat, 15 Jan 2022 18:52:40: 1000000 INFO @ Sat, 15 Jan 2022 18:52:41: 4000000 INFO @ Sat, 15 Jan 2022 18:52:43: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 18:52:43: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 18:52:43: #1 total tags in treatment: 2072740 INFO @ Sat, 15 Jan 2022 18:52:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:52:43: #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 18:52:43: #1 tags after filtering in treatment: 1550622 INFO @ Sat, 15 Jan 2022 18:52:43: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 18:52:43: #1 finished! INFO @ Sat, 15 Jan 2022 18:52:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:52:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:52:43: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 18:52:43: Too few paired peaks (32) 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 18:52:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.10_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/SRX8398447/SRX8398447.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:52:48: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:52:56: 3000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:53:05: 4000000 INFO @ Sat, 15 Jan 2022 18:53:06: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 18:53:06: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 18:53:06: #1 total tags in treatment: 2072740 INFO @ Sat, 15 Jan 2022 18:53:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:53:06: #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 18:53:06: #1 tags after filtering in treatment: 1550622 INFO @ Sat, 15 Jan 2022 18:53:06: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 15 Jan 2022 18:53:06: #1 finished! INFO @ Sat, 15 Jan 2022 18:53:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:53:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:53:06: #2 number of paired peaks: 32 WARNING @ Sat, 15 Jan 2022 18:53:06: Too few paired peaks (32) 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 18:53:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.20_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/SRX8398447/SRX8398447.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8398447/SRX8398447.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling