Job ID = 14521622 SRX = SRX9399124 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9022256 spots for SRR12935405/SRR12935405.sra Written 9022256 spots for SRR12935405/SRR12935405.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: 00:06:16 9022256 reads; of these: 9022256 (100.00%) were paired; of these: 1566270 (17.36%) aligned concordantly 0 times 6013838 (66.66%) aligned concordantly exactly 1 time 1442148 (15.98%) aligned concordantly >1 times ---- 1566270 pairs aligned concordantly 0 times; of these: 72440 (4.63%) aligned discordantly 1 time ---- 1493830 pairs aligned 0 times concordantly or discordantly; of these: 2987660 mates make up the pairs; of these: 2829227 (94.70%) aligned 0 times 106578 (3.57%) aligned exactly 1 time 51855 (1.74%) aligned >1 times 84.32% overall alignment rate Time searching: 00:06:16 Overall time: 00:06:16 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] 3240448 / 7513572 = 0.4313 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 21:24:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.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 21:24:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:24:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:24:50: 1000000 INFO @ Sat, 15 Jan 2022 21:24:56: 2000000 INFO @ Sat, 15 Jan 2022 21:25:01: 3000000 INFO @ Sat, 15 Jan 2022 21:25:06: 4000000 INFO @ Sat, 15 Jan 2022 21:25:11: 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 21:25:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.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 21:25:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:25:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:25:17: 6000000 INFO @ Sat, 15 Jan 2022 21:25:20: 1000000 INFO @ Sat, 15 Jan 2022 21:25:23: 7000000 INFO @ Sat, 15 Jan 2022 21:25:26: 2000000 INFO @ Sat, 15 Jan 2022 21:25:28: 8000000 INFO @ Sat, 15 Jan 2022 21:25:32: 3000000 INFO @ Sat, 15 Jan 2022 21:25:33: #1 tag size is determined as 49 bps INFO @ Sat, 15 Jan 2022 21:25:33: #1 tag size = 49 INFO @ Sat, 15 Jan 2022 21:25:33: #1 total tags in treatment: 4226923 INFO @ Sat, 15 Jan 2022 21:25:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:25:33: #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 21:25:33: #1 tags after filtering in treatment: 2832008 INFO @ Sat, 15 Jan 2022 21:25:33: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:25:33: #1 finished! INFO @ Sat, 15 Jan 2022 21:25:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:25:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:25:33: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 21:25:33: Too few paired peaks (27) 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 21:25:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.05_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/SRX9399124/SRX9399124.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:25:38: 4000000 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 21:25:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.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 21:25:45: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:25:45: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:25:45: 5000000 INFO @ Sat, 15 Jan 2022 21:25:51: 1000000 INFO @ Sat, 15 Jan 2022 21:25:51: 6000000 INFO @ Sat, 15 Jan 2022 21:25:57: 2000000 INFO @ Sat, 15 Jan 2022 21:25:58: 7000000 INFO @ Sat, 15 Jan 2022 21:26:03: 3000000 INFO @ Sat, 15 Jan 2022 21:26:05: 8000000 INFO @ Sat, 15 Jan 2022 21:26:09: 4000000 INFO @ Sat, 15 Jan 2022 21:26:11: #1 tag size is determined as 49 bps INFO @ Sat, 15 Jan 2022 21:26:11: #1 tag size = 49 INFO @ Sat, 15 Jan 2022 21:26:11: #1 total tags in treatment: 4226923 INFO @ Sat, 15 Jan 2022 21:26:11: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:26:11: #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 21:26:11: #1 tags after filtering in treatment: 2832008 INFO @ Sat, 15 Jan 2022 21:26:11: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:26:11: #1 finished! INFO @ Sat, 15 Jan 2022 21:26:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:26:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:26:11: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 21:26:11: Too few paired peaks (27) 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 21:26:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.10_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/SRX9399124/SRX9399124.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:26:14: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:26:19: 6000000 INFO @ Sat, 15 Jan 2022 21:26:25: 7000000 INFO @ Sat, 15 Jan 2022 21:26:30: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:26:34: #1 tag size is determined as 49 bps INFO @ Sat, 15 Jan 2022 21:26:34: #1 tag size = 49 INFO @ Sat, 15 Jan 2022 21:26:34: #1 total tags in treatment: 4226923 INFO @ Sat, 15 Jan 2022 21:26:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:26:34: #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 21:26:34: #1 tags after filtering in treatment: 2832008 INFO @ Sat, 15 Jan 2022 21:26:34: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:26:34: #1 finished! INFO @ Sat, 15 Jan 2022 21:26:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:26:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:26:34: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 21:26:34: Too few paired peaks (27) 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 21:26:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.20_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/SRX9399124/SRX9399124.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399124/SRX9399124.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling