Job ID = 14521344 SRX = SRX10468550 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4474796 spots for SRR14094861/SRR14094861.sra Written 4474796 spots for SRR14094861/SRR14094861.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: 00:02:16 4474796 reads; of these: 4474796 (100.00%) were paired; of these: 393894 (8.80%) aligned concordantly 0 times 3293224 (73.59%) aligned concordantly exactly 1 time 787678 (17.60%) aligned concordantly >1 times ---- 393894 pairs aligned concordantly 0 times; of these: 61022 (15.49%) aligned discordantly 1 time ---- 332872 pairs aligned 0 times concordantly or discordantly; of these: 665744 mates make up the pairs; of these: 539791 (81.08%) aligned 0 times 74169 (11.14%) aligned exactly 1 time 51784 (7.78%) aligned >1 times 93.97% overall alignment rate Time searching: 00:02:16 Overall time: 00:02:16 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] 96820 / 4085836 = 0.0237 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 20:56:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.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 20:56:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:56:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:56:51: 1000000 INFO @ Sat, 15 Jan 2022 20:56:57: 2000000 INFO @ Sat, 15 Jan 2022 20:57:03: 3000000 INFO @ Sat, 15 Jan 2022 20:57:08: 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 20:57:14: 5000000 INFO @ Sat, 15 Jan 2022 20:57:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.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 20:57:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:57:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:57:20: 6000000 INFO @ Sat, 15 Jan 2022 20:57:21: 1000000 INFO @ Sat, 15 Jan 2022 20:57:25: 7000000 INFO @ Sat, 15 Jan 2022 20:57:27: 2000000 INFO @ Sat, 15 Jan 2022 20:57:31: 8000000 INFO @ Sat, 15 Jan 2022 20:57:32: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:57:32: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:57:32: #1 total tags in treatment: 3984134 INFO @ Sat, 15 Jan 2022 20:57:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:57:32: #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 20:57:32: #1 tags after filtering in treatment: 3241749 INFO @ Sat, 15 Jan 2022 20:57:32: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 20:57:32: #1 finished! INFO @ Sat, 15 Jan 2022 20:57:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:57:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:57:32: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:57:32: 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 20:57:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 20:57:33: 3000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:57:39: 4000000 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 20:57:44: 5000000 INFO @ Sat, 15 Jan 2022 20:57:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.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 20:57:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:57:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:57:50: 6000000 INFO @ Sat, 15 Jan 2022 20:57:51: 1000000 INFO @ Sat, 15 Jan 2022 20:57:55: 7000000 INFO @ Sat, 15 Jan 2022 20:57:56: 2000000 INFO @ Sat, 15 Jan 2022 20:58:01: 8000000 INFO @ Sat, 15 Jan 2022 20:58:02: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:58:02: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:58:02: #1 total tags in treatment: 3984134 INFO @ Sat, 15 Jan 2022 20:58:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:58:02: #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 20:58:02: #1 tags after filtering in treatment: 3241749 INFO @ Sat, 15 Jan 2022 20:58:02: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 20:58:02: #1 finished! INFO @ Sat, 15 Jan 2022 20:58:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:58:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:58:02: 3000000 INFO @ Sat, 15 Jan 2022 20:58:02: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:58:02: 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 20:58:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.10_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/SRX10468550/SRX10468550.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:58:07: 4000000 INFO @ Sat, 15 Jan 2022 20:58:12: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:58:17: 6000000 INFO @ Sat, 15 Jan 2022 20:58:22: 7000000 INFO @ Sat, 15 Jan 2022 20:58:26: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:58:27: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 20:58:27: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 20:58:27: #1 total tags in treatment: 3984134 INFO @ Sat, 15 Jan 2022 20:58:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:58:27: #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 20:58:28: #1 tags after filtering in treatment: 3241749 INFO @ Sat, 15 Jan 2022 20:58:28: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 15 Jan 2022 20:58:28: #1 finished! INFO @ Sat, 15 Jan 2022 20:58:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:58:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:58:28: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:58:28: 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 20:58:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.20_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/SRX10468550/SRX10468550.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468550/SRX10468550.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling