Job ID = 14519878 SRX = SRX9786295 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9746204 spots for SRR13362127/SRR13362127.sra Written 9746204 spots for SRR13362127/SRR13362127.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: 00:08:23 9746204 reads; of these: 9746204 (100.00%) were paired; of these: 1125431 (11.55%) aligned concordantly 0 times 6755935 (69.32%) aligned concordantly exactly 1 time 1864838 (19.13%) aligned concordantly >1 times ---- 1125431 pairs aligned concordantly 0 times; of these: 16533 (1.47%) aligned discordantly 1 time ---- 1108898 pairs aligned 0 times concordantly or discordantly; of these: 2217796 mates make up the pairs; of these: 1469151 (66.24%) aligned 0 times 582854 (26.28%) aligned exactly 1 time 165791 (7.48%) aligned >1 times 92.46% overall alignment rate Time searching: 00:08:23 Overall time: 00:08:23 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] 1351447 / 8633000 = 0.1565 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 18:11:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.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 18:11:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:11:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:11:14: 1000000 INFO @ Sat, 15 Jan 2022 18:11:19: 2000000 INFO @ Sat, 15 Jan 2022 18:11:24: 3000000 INFO @ Sat, 15 Jan 2022 18:11:28: 4000000 INFO @ Sat, 15 Jan 2022 18:11:33: 5000000 INFO @ Sat, 15 Jan 2022 18:11:38: 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 18:11:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.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 18:11:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:11:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:11:43: 7000000 INFO @ Sat, 15 Jan 2022 18:11:45: 1000000 INFO @ Sat, 15 Jan 2022 18:11:47: 8000000 INFO @ Sat, 15 Jan 2022 18:11:51: 2000000 INFO @ Sat, 15 Jan 2022 18:11:52: 9000000 INFO @ Sat, 15 Jan 2022 18:11:56: 3000000 INFO @ Sat, 15 Jan 2022 18:11:57: 10000000 INFO @ Sat, 15 Jan 2022 18:12:02: 11000000 INFO @ Sat, 15 Jan 2022 18:12:02: 4000000 INFO @ Sat, 15 Jan 2022 18:12:07: 12000000 INFO @ Sat, 15 Jan 2022 18:12:08: 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 18:12:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.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 18:12:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:12:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:12:12: 13000000 INFO @ Sat, 15 Jan 2022 18:12:13: 6000000 INFO @ Sat, 15 Jan 2022 18:12:15: 1000000 INFO @ Sat, 15 Jan 2022 18:12:17: 14000000 INFO @ Sat, 15 Jan 2022 18:12:19: 7000000 INFO @ Sat, 15 Jan 2022 18:12:21: 2000000 INFO @ Sat, 15 Jan 2022 18:12:21: 15000000 INFO @ Sat, 15 Jan 2022 18:12:23: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 18:12:23: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 18:12:23: #1 total tags in treatment: 7269699 INFO @ Sat, 15 Jan 2022 18:12:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:12:23: #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 18:12:23: #1 tags after filtering in treatment: 3773843 INFO @ Sat, 15 Jan 2022 18:12:23: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 15 Jan 2022 18:12:23: #1 finished! INFO @ Sat, 15 Jan 2022 18:12:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:12:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:12:23: #2 number of paired peaks: 18 WARNING @ Sat, 15 Jan 2022 18:12:23: Too few paired peaks (18) 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 18:12:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.05_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/SRX9786295/SRX9786295.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:12:24: 8000000 INFO @ Sat, 15 Jan 2022 18:12:27: 3000000 INFO @ Sat, 15 Jan 2022 18:12:30: 9000000 INFO @ Sat, 15 Jan 2022 18:12:33: 4000000 INFO @ Sat, 15 Jan 2022 18:12:35: 10000000 INFO @ Sat, 15 Jan 2022 18:12:39: 5000000 INFO @ Sat, 15 Jan 2022 18:12:41: 11000000 INFO @ Sat, 15 Jan 2022 18:12:45: 6000000 INFO @ Sat, 15 Jan 2022 18:12:46: 12000000 INFO @ Sat, 15 Jan 2022 18:12:51: 7000000 INFO @ Sat, 15 Jan 2022 18:12:52: 13000000 INFO @ Sat, 15 Jan 2022 18:12:57: 8000000 INFO @ Sat, 15 Jan 2022 18:12:58: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:13:03: 9000000 INFO @ Sat, 15 Jan 2022 18:13:03: 15000000 INFO @ Sat, 15 Jan 2022 18:13:05: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 18:13:05: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 18:13:05: #1 total tags in treatment: 7269699 INFO @ Sat, 15 Jan 2022 18:13:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:13:05: #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 18:13:05: #1 tags after filtering in treatment: 3773843 INFO @ Sat, 15 Jan 2022 18:13:05: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 15 Jan 2022 18:13:05: #1 finished! INFO @ Sat, 15 Jan 2022 18:13:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:13:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:13:06: #2 number of paired peaks: 18 WARNING @ Sat, 15 Jan 2022 18:13:06: Too few paired peaks (18) 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 18:13:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.10_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/SRX9786295/SRX9786295.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:13:09: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:13:14: 11000000 INFO @ Sat, 15 Jan 2022 18:13:21: 12000000 INFO @ Sat, 15 Jan 2022 18:13:27: 13000000 INFO @ Sat, 15 Jan 2022 18:13:33: 14000000 INFO @ Sat, 15 Jan 2022 18:13:38: 15000000 INFO @ Sat, 15 Jan 2022 18:13:40: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 18:13:40: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 18:13:40: #1 total tags in treatment: 7269699 INFO @ Sat, 15 Jan 2022 18:13:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:13:40: #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 18:13:40: #1 tags after filtering in treatment: 3773843 INFO @ Sat, 15 Jan 2022 18:13:40: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 15 Jan 2022 18:13:40: #1 finished! INFO @ Sat, 15 Jan 2022 18:13:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:13:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:13:41: #2 number of paired peaks: 18 WARNING @ Sat, 15 Jan 2022 18:13:41: Too few paired peaks (18) 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 18:13:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.20_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/SRX9786295/SRX9786295.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786295/SRX9786295.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling