Job ID = 14522018 SRX = SRX4623299 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 13090999 spots for SRR7767704/SRR7767704.sra Written 13090999 spots for SRR7767704/SRR7767704.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: 00:06:37 13090999 reads; of these: 13090999 (100.00%) were paired; of these: 1764738 (13.48%) aligned concordantly 0 times 9706603 (74.15%) aligned concordantly exactly 1 time 1619658 (12.37%) aligned concordantly >1 times ---- 1764738 pairs aligned concordantly 0 times; of these: 375034 (21.25%) aligned discordantly 1 time ---- 1389704 pairs aligned 0 times concordantly or discordantly; of these: 2779408 mates make up the pairs; of these: 2471416 (88.92%) aligned 0 times 143084 (5.15%) aligned exactly 1 time 164908 (5.93%) aligned >1 times 90.56% overall alignment rate Time searching: 00:06:37 Overall time: 00:06:37 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] 187391 / 11692204 = 0.0160 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 22:12:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.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 22:12:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:12:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:12:46: 1000000 INFO @ Sat, 15 Jan 2022 22:12:52: 2000000 INFO @ Sat, 15 Jan 2022 22:12:57: 3000000 INFO @ Sat, 15 Jan 2022 22:13:03: 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 22:13:09: 5000000 INFO @ Sat, 15 Jan 2022 22:13:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.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 22:13:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:13:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:13:14: 6000000 INFO @ Sat, 15 Jan 2022 22:13:17: 1000000 INFO @ Sat, 15 Jan 2022 22:13:20: 7000000 INFO @ Sat, 15 Jan 2022 22:13:23: 2000000 INFO @ Sat, 15 Jan 2022 22:13:26: 8000000 INFO @ Sat, 15 Jan 2022 22:13:29: 3000000 INFO @ Sat, 15 Jan 2022 22:13:31: 9000000 INFO @ Sat, 15 Jan 2022 22:13:35: 4000000 INFO @ Sat, 15 Jan 2022 22:13:37: 10000000 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 22:13:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.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 22:13:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:13:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:13:41: 5000000 INFO @ Sat, 15 Jan 2022 22:13:43: 11000000 INFO @ Sat, 15 Jan 2022 22:13:45: 1000000 INFO @ Sat, 15 Jan 2022 22:13:47: 6000000 INFO @ Sat, 15 Jan 2022 22:13:49: 12000000 INFO @ Sat, 15 Jan 2022 22:13:50: 2000000 INFO @ Sat, 15 Jan 2022 22:13:53: 7000000 INFO @ Sat, 15 Jan 2022 22:13:54: 13000000 INFO @ Sat, 15 Jan 2022 22:13:55: 3000000 INFO @ Sat, 15 Jan 2022 22:14:00: 8000000 INFO @ Sat, 15 Jan 2022 22:14:00: 4000000 INFO @ Sat, 15 Jan 2022 22:14:00: 14000000 INFO @ Sat, 15 Jan 2022 22:14:05: 5000000 INFO @ Sat, 15 Jan 2022 22:14:06: 15000000 INFO @ Sat, 15 Jan 2022 22:14:06: 9000000 INFO @ Sat, 15 Jan 2022 22:14:10: 6000000 INFO @ Sat, 15 Jan 2022 22:14:11: 16000000 INFO @ Sat, 15 Jan 2022 22:14:12: 10000000 INFO @ Sat, 15 Jan 2022 22:14:15: 7000000 INFO @ Sat, 15 Jan 2022 22:14:18: 17000000 INFO @ Sat, 15 Jan 2022 22:14:18: 11000000 INFO @ Sat, 15 Jan 2022 22:14:20: 8000000 INFO @ Sat, 15 Jan 2022 22:14:24: 18000000 INFO @ Sat, 15 Jan 2022 22:14:24: 12000000 INFO @ Sat, 15 Jan 2022 22:14:25: 9000000 INFO @ Sat, 15 Jan 2022 22:14:30: 19000000 INFO @ Sat, 15 Jan 2022 22:14:30: 10000000 INFO @ Sat, 15 Jan 2022 22:14:30: 13000000 INFO @ Sat, 15 Jan 2022 22:14:35: 11000000 INFO @ Sat, 15 Jan 2022 22:14:36: 20000000 INFO @ Sat, 15 Jan 2022 22:14:36: 14000000 INFO @ Sat, 15 Jan 2022 22:14:40: 12000000 INFO @ Sat, 15 Jan 2022 22:14:42: 21000000 INFO @ Sat, 15 Jan 2022 22:14:42: 15000000 INFO @ Sat, 15 Jan 2022 22:14:45: 13000000 INFO @ Sat, 15 Jan 2022 22:14:47: 22000000 INFO @ Sat, 15 Jan 2022 22:14:48: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:14:50: 14000000 INFO @ Sat, 15 Jan 2022 22:14:53: 23000000 INFO @ Sat, 15 Jan 2022 22:14:54: 17000000 INFO @ Sat, 15 Jan 2022 22:14:55: 15000000 INFO @ Sat, 15 Jan 2022 22:14:55: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:14:55: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:14:55: #1 total tags in treatment: 11140564 INFO @ Sat, 15 Jan 2022 22:14:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:14:55: #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 22:14:55: #1 tags after filtering in treatment: 8243078 INFO @ Sat, 15 Jan 2022 22:14:55: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:14:55: #1 finished! INFO @ Sat, 15 Jan 2022 22:14:55: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:14:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:14:56: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:14:56: Too few paired peaks (0) 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 22:14:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05_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/SRX4623299/SRX4623299.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:14:59: 16000000 INFO @ Sat, 15 Jan 2022 22:15:00: 18000000 INFO @ Sat, 15 Jan 2022 22:15:04: 17000000 INFO @ Sat, 15 Jan 2022 22:15:05: 19000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:15:09: 18000000 INFO @ Sat, 15 Jan 2022 22:15:11: 20000000 INFO @ Sat, 15 Jan 2022 22:15:14: 19000000 INFO @ Sat, 15 Jan 2022 22:15:17: 21000000 INFO @ Sat, 15 Jan 2022 22:15:18: 20000000 INFO @ Sat, 15 Jan 2022 22:15:23: 21000000 INFO @ Sat, 15 Jan 2022 22:15:23: 22000000 INFO @ Sat, 15 Jan 2022 22:15:28: 22000000 INFO @ Sat, 15 Jan 2022 22:15:29: 23000000 INFO @ Sat, 15 Jan 2022 22:15:31: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:15:31: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:15:31: #1 total tags in treatment: 11140564 INFO @ Sat, 15 Jan 2022 22:15:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:15:31: #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 22:15:31: #1 tags after filtering in treatment: 8243078 INFO @ Sat, 15 Jan 2022 22:15:31: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:15:31: #1 finished! INFO @ Sat, 15 Jan 2022 22:15:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:15:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:15:32: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:15:32: Too few paired peaks (0) 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 22:15:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10_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/SRX4623299/SRX4623299.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:15:33: 23000000 INFO @ Sat, 15 Jan 2022 22:15:35: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:15:35: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:15:35: #1 total tags in treatment: 11140564 INFO @ Sat, 15 Jan 2022 22:15:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:15:35: #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 22:15:35: #1 tags after filtering in treatment: 8243078 INFO @ Sat, 15 Jan 2022 22:15:35: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:15:35: #1 finished! INFO @ Sat, 15 Jan 2022 22:15:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:15:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:15:35: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:15:35: Too few paired peaks (0) 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 22:15:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20_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/SRX4623299/SRX4623299.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623299/SRX4623299.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling