Job ID = 14521736 SRX = SRX9399166 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6963666 spots for SRR12935447/SRR12935447.sra Written 6963666 spots for SRR12935447/SRR12935447.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: 00:02:48 6963666 reads; of these: 6963666 (100.00%) were paired; of these: 1371738 (19.70%) aligned concordantly 0 times 5039904 (72.37%) aligned concordantly exactly 1 time 552024 (7.93%) aligned concordantly >1 times ---- 1371738 pairs aligned concordantly 0 times; of these: 247409 (18.04%) aligned discordantly 1 time ---- 1124329 pairs aligned 0 times concordantly or discordantly; of these: 2248658 mates make up the pairs; of these: 1790997 (79.65%) aligned 0 times 357902 (15.92%) aligned exactly 1 time 99759 (4.44%) aligned >1 times 87.14% overall alignment rate Time searching: 00:02:48 Overall time: 00:02:48 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_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] 2046726 / 5817230 = 0.3518 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 21:36:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.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 21:36:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:36:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:36:13: 1000000 INFO @ Sat, 15 Jan 2022 21:36:18: 2000000 INFO @ Sat, 15 Jan 2022 21:36:22: 3000000 INFO @ Sat, 15 Jan 2022 21:36:26: 4000000 INFO @ Sat, 15 Jan 2022 21:36:31: 5000000 INFO @ Sat, 15 Jan 2022 21:36:35: 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 21:36:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.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 21:36:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:36:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:36:39: 7000000 INFO @ Sat, 15 Jan 2022 21:36:44: 8000000 INFO @ Sat, 15 Jan 2022 21:36:44: 1000000 INFO @ Sat, 15 Jan 2022 21:36:44: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:36:44: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:36:44: #1 total tags in treatment: 3601317 INFO @ Sat, 15 Jan 2022 21:36:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:36:44: #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 21:36:44: #1 tags after filtering in treatment: 2661041 INFO @ Sat, 15 Jan 2022 21:36:44: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 21:36:44: #1 finished! INFO @ Sat, 15 Jan 2022 21:36:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:36:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:36:44: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:36:44: Too few paired peaks (1) 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 21:36:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.05_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/SRX9399166/SRX9399166.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:36:48: 2000000 INFO @ Sat, 15 Jan 2022 21:36:53: 3000000 INFO @ Sat, 15 Jan 2022 21:36:57: 4000000 INFO @ Sat, 15 Jan 2022 21:37:01: 5000000 INFO @ Sat, 15 Jan 2022 21:37:06: 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 21:37:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.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 21:37:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:37:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:37:10: 7000000 INFO @ Sat, 15 Jan 2022 21:37:15: 1000000 INFO @ Sat, 15 Jan 2022 21:37:15: 8000000 INFO @ Sat, 15 Jan 2022 21:37:15: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:37:15: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:37:15: #1 total tags in treatment: 3601317 INFO @ Sat, 15 Jan 2022 21:37:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:37:15: #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 21:37:15: #1 tags after filtering in treatment: 2661041 INFO @ Sat, 15 Jan 2022 21:37:15: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 21:37:15: #1 finished! INFO @ Sat, 15 Jan 2022 21:37:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:37:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:37:16: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:37:16: Too few paired peaks (1) 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 21:37:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.10_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/SRX9399166/SRX9399166.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:37:20: 2000000 INFO @ Sat, 15 Jan 2022 21:37:25: 3000000 INFO @ Sat, 15 Jan 2022 21:37:30: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:37:35: 5000000 INFO @ Sat, 15 Jan 2022 21:37:41: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:37:47: 7000000 INFO @ Sat, 15 Jan 2022 21:37:52: 8000000 INFO @ Sat, 15 Jan 2022 21:37:52: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 21:37:52: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 21:37:52: #1 total tags in treatment: 3601317 INFO @ Sat, 15 Jan 2022 21:37:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:37:52: #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 21:37:52: #1 tags after filtering in treatment: 2661041 INFO @ Sat, 15 Jan 2022 21:37:52: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 21:37:52: #1 finished! INFO @ Sat, 15 Jan 2022 21:37:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:37:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:37:52: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:37:52: Too few paired peaks (1) 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 21:37:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.20_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/SRX9399166/SRX9399166.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399166/SRX9399166.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling