Job ID = 12531654 SRX = SRX4555029 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6946320 spots for SRR7696724/SRR7696724.sra Written 6946320 spots for SRR7696724/SRR7696724.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: 00:08:42 6946320 reads; of these: 6946320 (100.00%) were paired; of these: 407578 (5.87%) aligned concordantly 0 times 3774759 (54.34%) aligned concordantly exactly 1 time 2763983 (39.79%) aligned concordantly >1 times ---- 407578 pairs aligned concordantly 0 times; of these: 29002 (7.12%) aligned discordantly 1 time ---- 378576 pairs aligned 0 times concordantly or discordantly; of these: 757152 mates make up the pairs; of these: 597118 (78.86%) aligned 0 times 88344 (11.67%) aligned exactly 1 time 71690 (9.47%) aligned >1 times 95.70% overall alignment rate Time searching: 00:08:42 Overall time: 00:08:42 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 12 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] 918855 / 2996364 = 0.3067 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:07:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.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, 17 Apr 2021 09:07:51: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:07:51: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:07:57: 1000000 INFO @ Sat, 17 Apr 2021 09:08:03: 2000000 INFO @ Sat, 17 Apr 2021 09:08:09: 3000000 INFO @ Sat, 17 Apr 2021 09:08:15: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:08:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.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, 17 Apr 2021 09:08:21: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:08:21: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:08:21: 5000000 INFO @ Sat, 17 Apr 2021 09:08:27: 6000000 INFO @ Sat, 17 Apr 2021 09:08:27: 1000000 INFO @ Sat, 17 Apr 2021 09:08:32: 7000000 INFO @ Sat, 17 Apr 2021 09:08:33: 2000000 INFO @ Sat, 17 Apr 2021 09:08:38: 8000000 INFO @ Sat, 17 Apr 2021 09:08:40: 3000000 INFO @ Sat, 17 Apr 2021 09:08:44: 9000000 INFO @ Sat, 17 Apr 2021 09:08:46: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:08:50: 10000000 INFO @ Sat, 17 Apr 2021 09:08:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.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, 17 Apr 2021 09:08:51: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:08:51: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:08:52: 5000000 INFO @ Sat, 17 Apr 2021 09:08:57: 11000000 INFO @ Sat, 17 Apr 2021 09:08:58: 6000000 INFO @ Sat, 17 Apr 2021 09:09:00: #1 tag size is determined as 79 bps INFO @ Sat, 17 Apr 2021 09:09:00: #1 tag size = 79 INFO @ Sat, 17 Apr 2021 09:09:00: #1 total tags in treatment: 5621089 INFO @ Sat, 17 Apr 2021 09:09:00: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:09:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:09:00: 1000000 INFO @ Sat, 17 Apr 2021 09:09:00: #1 tags after filtering in treatment: 1981765 INFO @ Sat, 17 Apr 2021 09:09:00: #1 Redundant rate of treatment: 0.65 INFO @ Sat, 17 Apr 2021 09:09:00: #1 finished! INFO @ Sat, 17 Apr 2021 09:09:00: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:09:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:09:00: #2 number of paired peaks: 93 WARNING @ Sat, 17 Apr 2021 09:09:00: Too few paired peaks (93) 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, 17 Apr 2021 09:09:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.05_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/SRX4555029/SRX4555029.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:09:04: 7000000 INFO @ Sat, 17 Apr 2021 09:09:09: 2000000 INFO @ Sat, 17 Apr 2021 09:09:10: 8000000 INFO @ Sat, 17 Apr 2021 09:09:16: 9000000 INFO @ Sat, 17 Apr 2021 09:09:18: 3000000 INFO @ Sat, 17 Apr 2021 09:09:23: 10000000 INFO @ Sat, 17 Apr 2021 09:09:28: 4000000 INFO @ Sat, 17 Apr 2021 09:09:29: 11000000 INFO @ Sat, 17 Apr 2021 09:09:32: #1 tag size is determined as 79 bps INFO @ Sat, 17 Apr 2021 09:09:32: #1 tag size = 79 INFO @ Sat, 17 Apr 2021 09:09:32: #1 total tags in treatment: 5621089 INFO @ Sat, 17 Apr 2021 09:09:32: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:09:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:09:32: #1 tags after filtering in treatment: 1981765 INFO @ Sat, 17 Apr 2021 09:09:32: #1 Redundant rate of treatment: 0.65 INFO @ Sat, 17 Apr 2021 09:09:32: #1 finished! INFO @ Sat, 17 Apr 2021 09:09:32: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:09:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:09:32: #2 number of paired peaks: 93 WARNING @ Sat, 17 Apr 2021 09:09:32: Too few paired peaks (93) 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, 17 Apr 2021 09:09:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.10_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/SRX4555029/SRX4555029.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:09:38: 5000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:09:48: 6000000 INFO @ Sat, 17 Apr 2021 09:09:58: 7000000 INFO @ Sat, 17 Apr 2021 09:10:09: 8000000 INFO @ Sat, 17 Apr 2021 09:10:20: 9000000 INFO @ Sat, 17 Apr 2021 09:10:31: 10000000 INFO @ Sat, 17 Apr 2021 09:10:40: 11000000 INFO @ Sat, 17 Apr 2021 09:10:45: #1 tag size is determined as 79 bps INFO @ Sat, 17 Apr 2021 09:10:45: #1 tag size = 79 INFO @ Sat, 17 Apr 2021 09:10:45: #1 total tags in treatment: 5621089 INFO @ Sat, 17 Apr 2021 09:10:45: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:10:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:10:45: #1 tags after filtering in treatment: 1981765 INFO @ Sat, 17 Apr 2021 09:10:45: #1 Redundant rate of treatment: 0.65 INFO @ Sat, 17 Apr 2021 09:10:45: #1 finished! INFO @ Sat, 17 Apr 2021 09:10:45: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:10:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:10:45: #2 number of paired peaks: 93 WARNING @ Sat, 17 Apr 2021 09:10:45: Too few paired peaks (93) 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, 17 Apr 2021 09:10:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555029/SRX4555029.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling