Job ID = 14520818 SRX = SRX8245415 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7976394 spots for SRR11684626/SRR11684626.sra Written 7976394 spots for SRR11684626/SRR11684626.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: 00:06:28 7976394 reads; of these: 7976394 (100.00%) were paired; of these: 3209559 (40.24%) aligned concordantly 0 times 4297104 (53.87%) aligned concordantly exactly 1 time 469731 (5.89%) aligned concordantly >1 times ---- 3209559 pairs aligned concordantly 0 times; of these: 44495 (1.39%) aligned discordantly 1 time ---- 3165064 pairs aligned 0 times concordantly or discordantly; of these: 6330128 mates make up the pairs; of these: 3536972 (55.88%) aligned 0 times 2488412 (39.31%) aligned exactly 1 time 304744 (4.81%) aligned >1 times 77.83% overall alignment rate Time searching: 00:06:28 Overall time: 00:06:28 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] 39622 / 4810442 = 0.0082 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 20:07:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.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 20:07:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:07:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:07:42: 1000000 INFO @ Sat, 15 Jan 2022 20:07:50: 2000000 INFO @ Sat, 15 Jan 2022 20:07:58: 3000000 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 20:08:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.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 20:08:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:08:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:08:06: 4000000 INFO @ Sat, 15 Jan 2022 20:08:12: 1000000 INFO @ Sat, 15 Jan 2022 20:08:15: 5000000 INFO @ Sat, 15 Jan 2022 20:08:21: 2000000 INFO @ Sat, 15 Jan 2022 20:08:23: 6000000 INFO @ Sat, 15 Jan 2022 20:08:29: 3000000 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 20:08:32: 7000000 INFO @ Sat, 15 Jan 2022 20:08:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.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 20:08:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:08:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:08:37: 4000000 INFO @ Sat, 15 Jan 2022 20:08:40: 8000000 INFO @ Sat, 15 Jan 2022 20:08:43: 1000000 INFO @ Sat, 15 Jan 2022 20:08:45: 5000000 INFO @ Sat, 15 Jan 2022 20:08:49: 9000000 INFO @ Sat, 15 Jan 2022 20:08:52: 2000000 INFO @ Sat, 15 Jan 2022 20:08:54: 6000000 INFO @ Sat, 15 Jan 2022 20:08:57: 10000000 INFO @ Sat, 15 Jan 2022 20:09:01: 3000000 INFO @ Sat, 15 Jan 2022 20:09:02: 7000000 INFO @ Sat, 15 Jan 2022 20:09:05: 11000000 INFO @ Sat, 15 Jan 2022 20:09:11: 8000000 INFO @ Sat, 15 Jan 2022 20:09:11: 4000000 INFO @ Sat, 15 Jan 2022 20:09:13: 12000000 INFO @ Sat, 15 Jan 2022 20:09:16: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:09:16: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:09:16: #1 total tags in treatment: 4727409 INFO @ Sat, 15 Jan 2022 20:09:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:09:16: #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 20:09:16: #1 tags after filtering in treatment: 3944712 INFO @ Sat, 15 Jan 2022 20:09:16: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 20:09:16: #1 finished! INFO @ Sat, 15 Jan 2022 20:09:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:09:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:09:16: #2 number of paired peaks: 24 WARNING @ Sat, 15 Jan 2022 20:09:16: Too few paired peaks (24) 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 20:09:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.05_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/SRX8245415/SRX8245415.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:09:19: 9000000 INFO @ Sat, 15 Jan 2022 20:09:21: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:09:27: 10000000 INFO @ Sat, 15 Jan 2022 20:09:30: 6000000 INFO @ Sat, 15 Jan 2022 20:09:35: 11000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:09:39: 7000000 INFO @ Sat, 15 Jan 2022 20:09:43: 12000000 INFO @ Sat, 15 Jan 2022 20:09:46: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:09:46: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:09:46: #1 total tags in treatment: 4727409 INFO @ Sat, 15 Jan 2022 20:09:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:09:46: #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 20:09:46: #1 tags after filtering in treatment: 3944712 INFO @ Sat, 15 Jan 2022 20:09:46: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 20:09:46: #1 finished! INFO @ Sat, 15 Jan 2022 20:09:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:09:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:09:46: #2 number of paired peaks: 24 WARNING @ Sat, 15 Jan 2022 20:09:46: Too few paired peaks (24) 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 20:09:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.10_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/SRX8245415/SRX8245415.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:09:49: 8000000 INFO @ Sat, 15 Jan 2022 20:09:58: 9000000 INFO @ Sat, 15 Jan 2022 20:10:08: 10000000 INFO @ Sat, 15 Jan 2022 20:10:17: 11000000 INFO @ Sat, 15 Jan 2022 20:10:26: 12000000 INFO @ Sat, 15 Jan 2022 20:10:28: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:10:28: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:10:28: #1 total tags in treatment: 4727409 INFO @ Sat, 15 Jan 2022 20:10:28: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:10:28: #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 20:10:28: #1 tags after filtering in treatment: 3944712 INFO @ Sat, 15 Jan 2022 20:10:28: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 20:10:28: #1 finished! INFO @ Sat, 15 Jan 2022 20:10:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:10:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:10:29: #2 number of paired peaks: 24 WARNING @ Sat, 15 Jan 2022 20:10:29: Too few paired peaks (24) 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 20:10:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.20_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/SRX8245415/SRX8245415.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245415/SRX8245415.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling