Job ID = 14521678 SRX = SRX9399148 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7918721 spots for SRR12935429/SRR12935429.sra Written 7918721 spots for SRR12935429/SRR12935429.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: 00:07:01 7918721 reads; of these: 7918721 (100.00%) were paired; of these: 1161916 (14.67%) aligned concordantly 0 times 6112066 (77.19%) aligned concordantly exactly 1 time 644739 (8.14%) aligned concordantly >1 times ---- 1161916 pairs aligned concordantly 0 times; of these: 155448 (13.38%) aligned discordantly 1 time ---- 1006468 pairs aligned 0 times concordantly or discordantly; of these: 2012936 mates make up the pairs; of these: 1678962 (83.41%) aligned 0 times 264193 (13.12%) aligned exactly 1 time 69781 (3.47%) aligned >1 times 89.40% overall alignment rate Time searching: 00:07:01 Overall time: 00:07:01 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] 1358673 / 6897320 = 0.1970 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 21:33:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.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 21:33:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:33:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:33:16: 1000000 INFO @ Sat, 15 Jan 2022 21:33:20: 2000000 INFO @ Sat, 15 Jan 2022 21:33:24: 3000000 INFO @ Sat, 15 Jan 2022 21:33:27: 4000000 INFO @ Sat, 15 Jan 2022 21:33:31: 5000000 INFO @ Sat, 15 Jan 2022 21:33:35: 6000000 INFO @ Sat, 15 Jan 2022 21:33:39: 7000000 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: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.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 21:33:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:33:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:33:42: 8000000 INFO @ Sat, 15 Jan 2022 21:33:46: 9000000 INFO @ Sat, 15 Jan 2022 21:33:47: 1000000 INFO @ Sat, 15 Jan 2022 21:33:50: 10000000 INFO @ Sat, 15 Jan 2022 21:33:51: 2000000 INFO @ Sat, 15 Jan 2022 21:33:54: 11000000 INFO @ Sat, 15 Jan 2022 21:33:56: 3000000 INFO @ Sat, 15 Jan 2022 21:33:56: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:33:56: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:33:56: #1 total tags in treatment: 5412727 INFO @ Sat, 15 Jan 2022 21:33:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:33:56: #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 21:33:56: #1 tags after filtering in treatment: 3595116 INFO @ Sat, 15 Jan 2022 21:33:56: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:33:56: #1 finished! INFO @ Sat, 15 Jan 2022 21:33:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:33:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:33:56: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:33:56: 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 21:33:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.05_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/SRX9399148/SRX9399148.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:34:00: 4000000 INFO @ Sat, 15 Jan 2022 21:34:05: 5000000 INFO @ Sat, 15 Jan 2022 21:34:09: 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 21:34:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.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 21:34:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:34:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:34:14: 7000000 INFO @ Sat, 15 Jan 2022 21:34:16: 1000000 INFO @ Sat, 15 Jan 2022 21:34:18: 8000000 INFO @ Sat, 15 Jan 2022 21:34:20: 2000000 INFO @ Sat, 15 Jan 2022 21:34:23: 9000000 INFO @ Sat, 15 Jan 2022 21:34:24: 3000000 INFO @ Sat, 15 Jan 2022 21:34:27: 10000000 INFO @ Sat, 15 Jan 2022 21:34:28: 4000000 INFO @ Sat, 15 Jan 2022 21:34:32: 11000000 INFO @ Sat, 15 Jan 2022 21:34:32: 5000000 INFO @ Sat, 15 Jan 2022 21:34:34: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:34:34: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:34:34: #1 total tags in treatment: 5412727 INFO @ Sat, 15 Jan 2022 21:34:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:34:34: #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 21:34:34: #1 tags after filtering in treatment: 3595116 INFO @ Sat, 15 Jan 2022 21:34:34: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:34:34: #1 finished! INFO @ Sat, 15 Jan 2022 21:34:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:34:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:34:34: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:34:34: 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 21:34:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.10_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/SRX9399148/SRX9399148.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:34:36: 6000000 INFO @ Sat, 15 Jan 2022 21:34:39: 7000000 INFO @ Sat, 15 Jan 2022 21:34:43: 8000000 INFO @ Sat, 15 Jan 2022 21:34:47: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:34:51: 10000000 INFO @ Sat, 15 Jan 2022 21:34:55: 11000000 INFO @ Sat, 15 Jan 2022 21:34:57: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:34:57: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:34:57: #1 total tags in treatment: 5412727 INFO @ Sat, 15 Jan 2022 21:34:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:34:57: #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 21:34:57: #1 tags after filtering in treatment: 3595116 INFO @ Sat, 15 Jan 2022 21:34:57: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:34:57: #1 finished! INFO @ Sat, 15 Jan 2022 21:34:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:34:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:34:57: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:34:57: 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 21:34:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.20_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/SRX9399148/SRX9399148.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399148/SRX9399148.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。