Job ID = 14521461 SRX = SRX10828595 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6375319 spots for SRR14480420/SRR14480420.sra Written 6375319 spots for SRR14480420/SRR14480420.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: 00:03:35 6375319 reads; of these: 6375319 (100.00%) were paired; of these: 610330 (9.57%) aligned concordantly 0 times 4786606 (75.08%) aligned concordantly exactly 1 time 978383 (15.35%) aligned concordantly >1 times ---- 610330 pairs aligned concordantly 0 times; of these: 151596 (24.84%) aligned discordantly 1 time ---- 458734 pairs aligned 0 times concordantly or discordantly; of these: 917468 mates make up the pairs; of these: 688834 (75.08%) aligned 0 times 146013 (15.91%) aligned exactly 1 time 82621 (9.01%) aligned >1 times 94.60% overall alignment rate Time searching: 00:03:35 Overall time: 00:03:35 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] 983899 / 5828465 = 0.1688 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 21:07:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.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 21:07:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:07:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:07:38: 1000000 INFO @ Sat, 15 Jan 2022 21:07:43: 2000000 INFO @ Sat, 15 Jan 2022 21:07:47: 3000000 INFO @ Sat, 15 Jan 2022 21:07:52: 4000000 INFO @ Sat, 15 Jan 2022 21:07:56: 5000000 INFO @ Sat, 15 Jan 2022 21:08:01: 6000000 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 21:08:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.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 21:08:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:08:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:08:05: 7000000 INFO @ Sat, 15 Jan 2022 21:08:09: 1000000 INFO @ Sat, 15 Jan 2022 21:08:10: 8000000 INFO @ Sat, 15 Jan 2022 21:08:14: 2000000 INFO @ Sat, 15 Jan 2022 21:08:15: 9000000 INFO @ Sat, 15 Jan 2022 21:08:18: 3000000 INFO @ Sat, 15 Jan 2022 21:08:20: 10000000 INFO @ Sat, 15 Jan 2022 21:08:20: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:08:20: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:08:20: #1 total tags in treatment: 4784809 INFO @ Sat, 15 Jan 2022 21:08:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:08:20: #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 21:08:20: #1 tags after filtering in treatment: 3104828 INFO @ Sat, 15 Jan 2022 21:08:20: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:08:20: #1 finished! INFO @ Sat, 15 Jan 2022 21:08:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:08:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:08:20: #2 number of paired peaks: 12 WARNING @ Sat, 15 Jan 2022 21:08:20: Too few paired peaks (12) 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 21:08:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.05_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/SRX10828595/SRX10828595.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:08:23: 4000000 INFO @ Sat, 15 Jan 2022 21:08:28: 5000000 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 21:08:32: 6000000 INFO @ Sat, 15 Jan 2022 21:08:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.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 21:08:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:08:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:08:37: 7000000 INFO @ Sat, 15 Jan 2022 21:08:39: 1000000 INFO @ Sat, 15 Jan 2022 21:08:42: 8000000 INFO @ Sat, 15 Jan 2022 21:08:43: 2000000 INFO @ Sat, 15 Jan 2022 21:08:46: 9000000 INFO @ Sat, 15 Jan 2022 21:08:48: 3000000 INFO @ Sat, 15 Jan 2022 21:08:51: 10000000 INFO @ Sat, 15 Jan 2022 21:08:52: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:08:52: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:08:52: #1 total tags in treatment: 4784809 INFO @ Sat, 15 Jan 2022 21:08:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:08:52: #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 21:08:52: #1 tags after filtering in treatment: 3104828 INFO @ Sat, 15 Jan 2022 21:08:52: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:08:52: #1 finished! INFO @ Sat, 15 Jan 2022 21:08:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:08:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:08:52: #2 number of paired peaks: 12 WARNING @ Sat, 15 Jan 2022 21:08:52: Too few paired peaks (12) 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 21:08:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.10_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/SRX10828595/SRX10828595.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:08:53: 4000000 INFO @ Sat, 15 Jan 2022 21:08:58: 5000000 INFO @ Sat, 15 Jan 2022 21:09:02: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:09:07: 7000000 INFO @ Sat, 15 Jan 2022 21:09:11: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:09:16: 9000000 INFO @ Sat, 15 Jan 2022 21:09:20: 10000000 INFO @ Sat, 15 Jan 2022 21:09:20: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:09:20: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:09:20: #1 total tags in treatment: 4784809 INFO @ Sat, 15 Jan 2022 21:09:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:09:20: #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 21:09:21: #1 tags after filtering in treatment: 3104828 INFO @ Sat, 15 Jan 2022 21:09:21: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:09:21: #1 finished! INFO @ Sat, 15 Jan 2022 21:09:21: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:09:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:09:21: #2 number of paired peaks: 12 WARNING @ Sat, 15 Jan 2022 21:09:21: Too few paired peaks (12) 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 21:09:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.20_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/SRX10828595/SRX10828595.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828595/SRX10828595.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling