Job ID = 14520917 SRX = SRX8245323 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14243252 spots for SRR11684518/SRR11684518.sra Written 14243252 spots for SRR11684518/SRR11684518.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: 00:09:10 14243252 reads; of these: 14243252 (100.00%) were paired; of these: 9994299 (70.17%) aligned concordantly 0 times 3725214 (26.15%) aligned concordantly exactly 1 time 523739 (3.68%) aligned concordantly >1 times ---- 9994299 pairs aligned concordantly 0 times; of these: 99454 (1.00%) aligned discordantly 1 time ---- 9894845 pairs aligned 0 times concordantly or discordantly; of these: 19789690 mates make up the pairs; of these: 10334643 (52.22%) aligned 0 times 8203199 (41.45%) aligned exactly 1 time 1251848 (6.33%) aligned >1 times 63.72% overall alignment rate Time searching: 00:09:10 Overall time: 00:09:10 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] 91694 / 4347943 = 0.0211 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 20:23:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.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 20:23:21: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:23:21: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:23:27: 1000000 INFO @ Sat, 15 Jan 2022 20:23:32: 2000000 INFO @ Sat, 15 Jan 2022 20:23:37: 3000000 INFO @ Sat, 15 Jan 2022 20:23:42: 4000000 INFO @ Sat, 15 Jan 2022 20:23:47: 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 20:23:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.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 20:23:51: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:23:51: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:23:52: 6000000 INFO @ Sat, 15 Jan 2022 20:23:57: 1000000 INFO @ Sat, 15 Jan 2022 20:23:58: 7000000 INFO @ Sat, 15 Jan 2022 20:24:02: 2000000 INFO @ Sat, 15 Jan 2022 20:24:03: 8000000 INFO @ Sat, 15 Jan 2022 20:24:07: 3000000 INFO @ Sat, 15 Jan 2022 20:24:09: 9000000 INFO @ Sat, 15 Jan 2022 20:24:13: 4000000 INFO @ Sat, 15 Jan 2022 20:24:14: 10000000 INFO @ Sat, 15 Jan 2022 20:24:18: 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 20:24:20: 11000000 INFO @ Sat, 15 Jan 2022 20:24:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.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 20:24:21: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:24:21: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:24:24: 6000000 INFO @ Sat, 15 Jan 2022 20:24:26: 12000000 INFO @ Sat, 15 Jan 2022 20:24:27: 1000000 INFO @ Sat, 15 Jan 2022 20:24:30: 7000000 INFO @ Sat, 15 Jan 2022 20:24:31: 13000000 INFO @ Sat, 15 Jan 2022 20:24:33: 2000000 INFO @ Sat, 15 Jan 2022 20:24:36: 8000000 INFO @ Sat, 15 Jan 2022 20:24:38: 14000000 INFO @ Sat, 15 Jan 2022 20:24:39: 3000000 INFO @ Sat, 15 Jan 2022 20:24:41: 9000000 INFO @ Sat, 15 Jan 2022 20:24:44: 15000000 INFO @ Sat, 15 Jan 2022 20:24:44: 4000000 INFO @ Sat, 15 Jan 2022 20:24:47: 10000000 INFO @ Sat, 15 Jan 2022 20:24:50: 16000000 INFO @ Sat, 15 Jan 2022 20:24:50: 5000000 INFO @ Sat, 15 Jan 2022 20:24:53: 11000000 INFO @ Sat, 15 Jan 2022 20:24:56: 17000000 INFO @ Sat, 15 Jan 2022 20:24:56: 6000000 INFO @ Sat, 15 Jan 2022 20:24:59: 12000000 INFO @ Sat, 15 Jan 2022 20:25:01: #1 tag size is determined as 28 bps INFO @ Sat, 15 Jan 2022 20:25:01: #1 tag size = 28 INFO @ Sat, 15 Jan 2022 20:25:01: #1 total tags in treatment: 4157982 INFO @ Sat, 15 Jan 2022 20:25:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:25:01: #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 20:25:01: #1 tags after filtering in treatment: 3506738 INFO @ Sat, 15 Jan 2022 20:25:01: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:25:01: #1 finished! INFO @ Sat, 15 Jan 2022 20:25:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:25:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:25:02: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:25:02: Too few paired peaks (29) 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 20:25:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.05_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/SRX8245323/SRX8245323.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:25:02: 7000000 INFO @ Sat, 15 Jan 2022 20:25:04: 13000000 INFO @ Sat, 15 Jan 2022 20:25:07: 8000000 INFO @ Sat, 15 Jan 2022 20:25:10: 14000000 INFO @ Sat, 15 Jan 2022 20:25:12: 9000000 INFO @ Sat, 15 Jan 2022 20:25:15: 15000000 INFO @ Sat, 15 Jan 2022 20:25:18: 10000000 INFO @ Sat, 15 Jan 2022 20:25:20: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:25:23: 11000000 INFO @ Sat, 15 Jan 2022 20:25:26: 17000000 INFO @ Sat, 15 Jan 2022 20:25:28: 12000000 INFO @ Sat, 15 Jan 2022 20:25:31: #1 tag size is determined as 28 bps INFO @ Sat, 15 Jan 2022 20:25:31: #1 tag size = 28 INFO @ Sat, 15 Jan 2022 20:25:31: #1 total tags in treatment: 4157982 INFO @ Sat, 15 Jan 2022 20:25:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:25:31: #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 20:25:31: #1 tags after filtering in treatment: 3506738 INFO @ Sat, 15 Jan 2022 20:25:31: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:25:31: #1 finished! INFO @ Sat, 15 Jan 2022 20:25:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:25:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:25:31: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:25:31: Too few paired peaks (29) 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 20:25:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.10_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/SRX8245323/SRX8245323.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:25:33: 13000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:25:38: 14000000 INFO @ Sat, 15 Jan 2022 20:25:43: 15000000 INFO @ Sat, 15 Jan 2022 20:25:48: 16000000 INFO @ Sat, 15 Jan 2022 20:25:52: 17000000 INFO @ Sat, 15 Jan 2022 20:25:57: #1 tag size is determined as 28 bps INFO @ Sat, 15 Jan 2022 20:25:57: #1 tag size = 28 INFO @ Sat, 15 Jan 2022 20:25:57: #1 total tags in treatment: 4157982 INFO @ Sat, 15 Jan 2022 20:25:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:25:57: #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 20:25:57: #1 tags after filtering in treatment: 3506738 INFO @ Sat, 15 Jan 2022 20:25:57: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 20:25:57: #1 finished! INFO @ Sat, 15 Jan 2022 20:25:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:25:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:25:57: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 20:25:57: Too few paired peaks (29) 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 20:25:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.20_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/SRX8245323/SRX8245323.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245323/SRX8245323.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling