Job ID = 14521679 SRX = SRX9399149 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7012061 spots for SRR12935430/SRR12935430.sra Written 7012061 spots for SRR12935430/SRR12935430.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: 00:07:10 7012061 reads; of these: 7012061 (100.00%) were paired; of these: 902407 (12.87%) aligned concordantly 0 times 5514163 (78.64%) aligned concordantly exactly 1 time 595491 (8.49%) aligned concordantly >1 times ---- 902407 pairs aligned concordantly 0 times; of these: 102357 (11.34%) aligned discordantly 1 time ---- 800050 pairs aligned 0 times concordantly or discordantly; of these: 1600100 mates make up the pairs; of these: 1359637 (84.97%) aligned 0 times 191017 (11.94%) aligned exactly 1 time 49446 (3.09%) aligned >1 times 90.31% overall alignment rate Time searching: 00:07:10 Overall time: 00:07:10 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] 1009544 / 6201694 = 0.1628 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 21:33:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.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 21:33:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:33:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:33:18: 1000000 INFO @ Sat, 15 Jan 2022 21:33:23: 2000000 INFO @ Sat, 15 Jan 2022 21:33:28: 3000000 INFO @ Sat, 15 Jan 2022 21:33:33: 4000000 INFO @ Sat, 15 Jan 2022 21:33:37: 5000000 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 21:33:42: 6000000 INFO @ Sat, 15 Jan 2022 21:33:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.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 21:33:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:33:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:33:48: 7000000 INFO @ Sat, 15 Jan 2022 21:33:49: 1000000 INFO @ Sat, 15 Jan 2022 21:33:53: 8000000 INFO @ Sat, 15 Jan 2022 21:33:54: 2000000 INFO @ Sat, 15 Jan 2022 21:33:59: 9000000 INFO @ Sat, 15 Jan 2022 21:34:00: 3000000 INFO @ Sat, 15 Jan 2022 21:34:04: 10000000 INFO @ Sat, 15 Jan 2022 21:34:05: 4000000 INFO @ Sat, 15 Jan 2022 21:34:08: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:34:08: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:34:08: #1 total tags in treatment: 5106858 INFO @ Sat, 15 Jan 2022 21:34:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:34:08: #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 21:34:08: #1 tags after filtering in treatment: 3447696 INFO @ Sat, 15 Jan 2022 21:34:08: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:34:08: #1 finished! INFO @ Sat, 15 Jan 2022 21:34:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:34:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:34:08: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:34:08: 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 21:34:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.05_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/SRX9399149/SRX9399149.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:34:11: 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 21:34:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.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 21:34:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:34:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:34:16: 6000000 INFO @ Sat, 15 Jan 2022 21:34:20: 1000000 INFO @ Sat, 15 Jan 2022 21:34:22: 7000000 INFO @ Sat, 15 Jan 2022 21:34:27: 2000000 INFO @ Sat, 15 Jan 2022 21:34:29: 8000000 INFO @ Sat, 15 Jan 2022 21:34:34: 3000000 INFO @ Sat, 15 Jan 2022 21:34:35: 9000000 INFO @ Sat, 15 Jan 2022 21:34:41: 10000000 INFO @ Sat, 15 Jan 2022 21:34:41: 4000000 INFO @ Sat, 15 Jan 2022 21:34:45: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:34:45: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:34:45: #1 total tags in treatment: 5106858 INFO @ Sat, 15 Jan 2022 21:34:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:34:45: #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 21:34:45: #1 tags after filtering in treatment: 3447696 INFO @ Sat, 15 Jan 2022 21:34:45: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:34:45: #1 finished! INFO @ Sat, 15 Jan 2022 21:34:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:34:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:34:45: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:34:45: 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 21:34:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.10_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/SRX9399149/SRX9399149.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:34:48: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:34:54: 6000000 INFO @ Sat, 15 Jan 2022 21:35:01: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:35:07: 8000000 INFO @ Sat, 15 Jan 2022 21:35:13: 9000000 INFO @ Sat, 15 Jan 2022 21:35:19: 10000000 INFO @ Sat, 15 Jan 2022 21:35:23: #1 tag size is determined as 32 bps INFO @ Sat, 15 Jan 2022 21:35:23: #1 tag size = 32 INFO @ Sat, 15 Jan 2022 21:35:23: #1 total tags in treatment: 5106858 INFO @ Sat, 15 Jan 2022 21:35:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:35:23: #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 21:35:23: #1 tags after filtering in treatment: 3447696 INFO @ Sat, 15 Jan 2022 21:35:23: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 21:35:23: #1 finished! INFO @ Sat, 15 Jan 2022 21:35:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:35:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:35:23: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:35:23: 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 21:35:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.20_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/SRX9399149/SRX9399149.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399149/SRX9399149.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling