Job ID = 14520837 SRX = SRX8245306 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6600579 spots for SRR11684533/SRR11684533.sra Written 6600579 spots for SRR11684533/SRR11684533.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: 00:04:02 6600579 reads; of these: 6600579 (100.00%) were paired; of these: 2655670 (40.23%) aligned concordantly 0 times 3447096 (52.22%) aligned concordantly exactly 1 time 497813 (7.54%) aligned concordantly >1 times ---- 2655670 pairs aligned concordantly 0 times; of these: 218113 (8.21%) aligned discordantly 1 time ---- 2437557 pairs aligned 0 times concordantly or discordantly; of these: 4875114 mates make up the pairs; of these: 2860173 (58.67%) aligned 0 times 1671147 (34.28%) aligned exactly 1 time 343794 (7.05%) aligned >1 times 78.33% overall alignment rate Time searching: 00:04:02 Overall time: 00:04:02 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] 59867 / 4162404 = 0.0144 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 20:05:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.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 20:05:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:05:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:05:50: 1000000 INFO @ Sat, 15 Jan 2022 20:05:55: 2000000 INFO @ Sat, 15 Jan 2022 20:06:00: 3000000 INFO @ Sat, 15 Jan 2022 20:06:06: 4000000 INFO @ Sat, 15 Jan 2022 20:06:11: 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 20:06:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.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 20:06:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:06:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:06:16: 6000000 INFO @ Sat, 15 Jan 2022 20:06:21: 1000000 INFO @ Sat, 15 Jan 2022 20:06:22: 7000000 INFO @ Sat, 15 Jan 2022 20:06:27: 2000000 INFO @ Sat, 15 Jan 2022 20:06:28: 8000000 INFO @ Sat, 15 Jan 2022 20:06:33: 3000000 INFO @ Sat, 15 Jan 2022 20:06:34: 9000000 INFO @ Sat, 15 Jan 2022 20:06:39: 4000000 INFO @ Sat, 15 Jan 2022 20:06:40: 10000000 INFO @ Sat, 15 Jan 2022 20:06:41: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:06:41: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:06:41: #1 total tags in treatment: 3886425 INFO @ Sat, 15 Jan 2022 20:06:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:06:41: #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 20:06:41: #1 tags after filtering in treatment: 3192840 INFO @ Sat, 15 Jan 2022 20:06:41: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 15 Jan 2022 20:06:41: #1 finished! INFO @ Sat, 15 Jan 2022 20:06:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:06:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:06:41: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:06:41: Too few paired peaks (28) 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 20:06:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.05_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/SRX8245306/SRX8245306.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 20:06:45: 5000000 INFO @ Sat, 15 Jan 2022 20:06:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.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 20:06:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:06:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:06:51: 6000000 INFO @ Sat, 15 Jan 2022 20:06:52: 1000000 INFO @ Sat, 15 Jan 2022 20:06:57: 7000000 INFO @ Sat, 15 Jan 2022 20:06:59: 2000000 INFO @ Sat, 15 Jan 2022 20:07:04: 8000000 INFO @ Sat, 15 Jan 2022 20:07:06: 3000000 INFO @ Sat, 15 Jan 2022 20:07:10: 9000000 INFO @ Sat, 15 Jan 2022 20:07:13: 4000000 INFO @ Sat, 15 Jan 2022 20:07:16: 10000000 INFO @ Sat, 15 Jan 2022 20:07:18: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:07:18: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:07:18: #1 total tags in treatment: 3886425 INFO @ Sat, 15 Jan 2022 20:07:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:07:18: #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 20:07:18: #1 tags after filtering in treatment: 3192840 INFO @ Sat, 15 Jan 2022 20:07:18: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 15 Jan 2022 20:07:18: #1 finished! INFO @ Sat, 15 Jan 2022 20:07:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:07:18: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:07:18: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:07:18: Too few paired peaks (28) 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 20:07:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.10_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/SRX8245306/SRX8245306.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:07:19: 5000000 INFO @ Sat, 15 Jan 2022 20:07:26: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:07:33: 7000000 INFO @ Sat, 15 Jan 2022 20:07:39: 8000000 INFO @ Sat, 15 Jan 2022 20:07:45: 9000000 INFO @ Sat, 15 Jan 2022 20:07:52: 10000000 INFO @ Sat, 15 Jan 2022 20:07:53: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:07:53: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:07:53: #1 total tags in treatment: 3886425 INFO @ Sat, 15 Jan 2022 20:07:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:07:53: #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 20:07:53: #1 tags after filtering in treatment: 3192840 INFO @ Sat, 15 Jan 2022 20:07:53: #1 Redundant rate of treatment: 0.18 INFO @ Sat, 15 Jan 2022 20:07:53: #1 finished! INFO @ Sat, 15 Jan 2022 20:07:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:07:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:07:53: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:07:53: Too few paired peaks (28) 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 20:07:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.20_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/SRX8245306/SRX8245306.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245306/SRX8245306.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling