Job ID = 14521196 SRX = SRX8245374 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7486307 spots for SRR11684585/SRR11684585.sra Written 7486307 spots for SRR11684585/SRR11684585.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: 00:08:51 7486307 reads; of these: 7486307 (100.00%) were paired; of these: 3690095 (49.29%) aligned concordantly 0 times 2372481 (31.69%) aligned concordantly exactly 1 time 1423731 (19.02%) aligned concordantly >1 times ---- 3690095 pairs aligned concordantly 0 times; of these: 11430 (0.31%) aligned discordantly 1 time ---- 3678665 pairs aligned 0 times concordantly or discordantly; of these: 7357330 mates make up the pairs; of these: 4834405 (65.71%) aligned 0 times 1593978 (21.67%) aligned exactly 1 time 928947 (12.63%) aligned >1 times 67.71% overall alignment rate Time searching: 00:08:51 Overall time: 00:08:51 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] 215869 / 3807003 = 0.0567 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 20:47:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.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 20:47:58: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:47:58: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:48:03: 1000000 INFO @ Sat, 15 Jan 2022 20:48:07: 2000000 INFO @ Sat, 15 Jan 2022 20:48:11: 3000000 INFO @ Sat, 15 Jan 2022 20:48:16: 4000000 INFO @ Sat, 15 Jan 2022 20:48:20: 5000000 INFO @ Sat, 15 Jan 2022 20:48:25: 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 20:48:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.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 20:48:28: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:48:28: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:48:29: 7000000 INFO @ Sat, 15 Jan 2022 20:48:33: 1000000 INFO @ Sat, 15 Jan 2022 20:48:35: 8000000 INFO @ Sat, 15 Jan 2022 20:48:37: 2000000 INFO @ Sat, 15 Jan 2022 20:48:39: 9000000 INFO @ Sat, 15 Jan 2022 20:48:42: 3000000 INFO @ Sat, 15 Jan 2022 20:48:43: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:48:43: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:48:43: #1 total tags in treatment: 3580752 INFO @ Sat, 15 Jan 2022 20:48:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:48:43: #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 20:48:43: #1 tags after filtering in treatment: 2366268 INFO @ Sat, 15 Jan 2022 20:48:43: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 20:48:43: #1 finished! INFO @ Sat, 15 Jan 2022 20:48:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:48:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:48:43: #2 number of paired peaks: 83 WARNING @ Sat, 15 Jan 2022 20:48:43: Too few paired peaks (83) 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 20:48:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.05_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/SRX8245374/SRX8245374.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:48:46: 4000000 INFO @ Sat, 15 Jan 2022 20:48:51: 5000000 INFO @ Sat, 15 Jan 2022 20:48:55: 6000000 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 20:48:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.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 20:48:58: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:48:58: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:49:00: 7000000 INFO @ Sat, 15 Jan 2022 20:49:03: 1000000 INFO @ Sat, 15 Jan 2022 20:49:04: 8000000 INFO @ Sat, 15 Jan 2022 20:49:07: 2000000 INFO @ Sat, 15 Jan 2022 20:49:09: 9000000 INFO @ Sat, 15 Jan 2022 20:49:12: 3000000 INFO @ Sat, 15 Jan 2022 20:49:12: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:49:12: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:49:12: #1 total tags in treatment: 3580752 INFO @ Sat, 15 Jan 2022 20:49:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:49:12: #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 20:49:12: #1 tags after filtering in treatment: 2366268 INFO @ Sat, 15 Jan 2022 20:49:12: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 20:49:12: #1 finished! INFO @ Sat, 15 Jan 2022 20:49:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:49:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:49:13: #2 number of paired peaks: 83 WARNING @ Sat, 15 Jan 2022 20:49:13: Too few paired peaks (83) 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 20:49:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.10_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/SRX8245374/SRX8245374.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:49:16: 4000000 INFO @ Sat, 15 Jan 2022 20:49:21: 5000000 INFO @ Sat, 15 Jan 2022 20:49:25: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:49:30: 7000000 INFO @ Sat, 15 Jan 2022 20:49:34: 8000000 INFO @ Sat, 15 Jan 2022 20:49:39: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:49:42: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:49:42: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:49:42: #1 total tags in treatment: 3580752 INFO @ Sat, 15 Jan 2022 20:49:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:49:42: #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 20:49:42: #1 tags after filtering in treatment: 2366268 INFO @ Sat, 15 Jan 2022 20:49:42: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 20:49:42: #1 finished! INFO @ Sat, 15 Jan 2022 20:49:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:49:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:49:42: #2 number of paired peaks: 83 WARNING @ Sat, 15 Jan 2022 20:49:42: Too few paired peaks (83) 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 20:49:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.20_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/SRX8245374/SRX8245374.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245374/SRX8245374.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling