Job ID = 14520540 SRX = SRX3659073 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10933694 spots for SRR6682788/SRR6682788.sra Written 10933694 spots for SRR6682788/SRR6682788.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:10:02 10933694 reads; of these: 10933694 (100.00%) were paired; of these: 326262 (2.98%) aligned concordantly 0 times 9789092 (89.53%) aligned concordantly exactly 1 time 818340 (7.48%) aligned concordantly >1 times ---- 326262 pairs aligned concordantly 0 times; of these: 82080 (25.16%) aligned discordantly 1 time ---- 244182 pairs aligned 0 times concordantly or discordantly; of these: 488364 mates make up the pairs; of these: 324903 (66.53%) aligned 0 times 137255 (28.11%) aligned exactly 1 time 26206 (5.37%) aligned >1 times 98.51% overall alignment rate Time searching: 00:10:03 Overall time: 00:10:03 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 12 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] 1383764 / 10489106 = 0.1319 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 19:43:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.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 19:43:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:43:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:43:07: 1000000 INFO @ Sat, 15 Jan 2022 19:43:13: 2000000 INFO @ Sat, 15 Jan 2022 19:43:20: 3000000 INFO @ Sat, 15 Jan 2022 19:43:26: 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 19:43:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.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 19:43:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:43:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:43:32: 5000000 INFO @ Sat, 15 Jan 2022 19:43:40: 6000000 INFO @ Sat, 15 Jan 2022 19:43:40: 1000000 INFO @ Sat, 15 Jan 2022 19:43:47: 7000000 INFO @ Sat, 15 Jan 2022 19:43:49: 2000000 INFO @ Sat, 15 Jan 2022 19:43:55: 8000000 INFO @ Sat, 15 Jan 2022 19:43:58: 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 19:44:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.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 19:44:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:44:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:44:03: 9000000 INFO @ Sat, 15 Jan 2022 19:44:06: 4000000 INFO @ Sat, 15 Jan 2022 19:44:10: 1000000 INFO @ Sat, 15 Jan 2022 19:44:10: 10000000 INFO @ Sat, 15 Jan 2022 19:44:15: 5000000 INFO @ Sat, 15 Jan 2022 19:44:18: 11000000 INFO @ Sat, 15 Jan 2022 19:44:18: 2000000 INFO @ Sat, 15 Jan 2022 19:44:23: 6000000 INFO @ Sat, 15 Jan 2022 19:44:26: 12000000 INFO @ Sat, 15 Jan 2022 19:44:27: 3000000 INFO @ Sat, 15 Jan 2022 19:44:32: 7000000 INFO @ Sat, 15 Jan 2022 19:44:34: 13000000 INFO @ Sat, 15 Jan 2022 19:44:35: 4000000 INFO @ Sat, 15 Jan 2022 19:44:41: 8000000 INFO @ Sat, 15 Jan 2022 19:44:41: 14000000 INFO @ Sat, 15 Jan 2022 19:44:44: 5000000 INFO @ Sat, 15 Jan 2022 19:44:49: 15000000 INFO @ Sat, 15 Jan 2022 19:44:49: 9000000 INFO @ Sat, 15 Jan 2022 19:44:53: 6000000 INFO @ Sat, 15 Jan 2022 19:44:57: 16000000 INFO @ Sat, 15 Jan 2022 19:44:58: 10000000 INFO @ Sat, 15 Jan 2022 19:45:02: 7000000 INFO @ Sat, 15 Jan 2022 19:45:04: 17000000 INFO @ Sat, 15 Jan 2022 19:45:07: 11000000 INFO @ Sat, 15 Jan 2022 19:45:10: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:45:13: 18000000 INFO @ Sat, 15 Jan 2022 19:45:15: 12000000 INFO @ Sat, 15 Jan 2022 19:45:19: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:45:19: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:45:19: #1 total tags in treatment: 9224802 INFO @ Sat, 15 Jan 2022 19:45:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:45:19: #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 19:45:19: #1 tags after filtering in treatment: 5105543 INFO @ Sat, 15 Jan 2022 19:45:19: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:45:19: #1 finished! INFO @ Sat, 15 Jan 2022 19:45:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:45:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:45:19: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:45:19: 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 19:45:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.05_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/SRX3659073/SRX3659073.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:45:19: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:45:24: 13000000 INFO @ Sat, 15 Jan 2022 19:45:28: 10000000 INFO @ Sat, 15 Jan 2022 19:45:33: 14000000 INFO @ Sat, 15 Jan 2022 19:45:37: 11000000 INFO @ Sat, 15 Jan 2022 19:45:42: 15000000 INFO @ Sat, 15 Jan 2022 19:45:45: 12000000 INFO @ Sat, 15 Jan 2022 19:45:50: 16000000 INFO @ Sat, 15 Jan 2022 19:45:54: 13000000 INFO @ Sat, 15 Jan 2022 19:45:59: 17000000 INFO @ Sat, 15 Jan 2022 19:46:02: 14000000 INFO @ Sat, 15 Jan 2022 19:46:07: 18000000 INFO @ Sat, 15 Jan 2022 19:46:11: 15000000 INFO @ Sat, 15 Jan 2022 19:46:14: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:46:14: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:46:14: #1 total tags in treatment: 9224802 INFO @ Sat, 15 Jan 2022 19:46:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:46:14: #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 19:46:14: #1 tags after filtering in treatment: 5105543 INFO @ Sat, 15 Jan 2022 19:46:14: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:46:14: #1 finished! INFO @ Sat, 15 Jan 2022 19:46:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:46:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:46:15: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:46:15: 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 19:46:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.10_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/SRX3659073/SRX3659073.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:46:19: 16000000 INFO @ Sat, 15 Jan 2022 19:46:27: 17000000 INFO @ Sat, 15 Jan 2022 19:46:34: 18000000 INFO @ Sat, 15 Jan 2022 19:46:40: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:46:40: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:46:41: #1 total tags in treatment: 9224802 INFO @ Sat, 15 Jan 2022 19:46:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:46:42: #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 19:46:43: #1 tags after filtering in treatment: 5105543 INFO @ Sat, 15 Jan 2022 19:46:43: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 15 Jan 2022 19:46:43: #1 finished! INFO @ Sat, 15 Jan 2022 19:46:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:46:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:46:43: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:46:43: 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 19:46:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.20_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/SRX3659073/SRX3659073.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659073/SRX3659073.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling