Job ID = 14521387 SRX = SRX9807985 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10369127 spots for SRR13388788/SRR13388788.sra Written 10369127 spots for SRR13388788/SRR13388788.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: 00:05:24 10369127 reads; of these: 10369127 (100.00%) were paired; of these: 1854781 (17.89%) aligned concordantly 0 times 7577243 (73.08%) aligned concordantly exactly 1 time 937103 (9.04%) aligned concordantly >1 times ---- 1854781 pairs aligned concordantly 0 times; of these: 459414 (24.77%) aligned discordantly 1 time ---- 1395367 pairs aligned 0 times concordantly or discordantly; of these: 2790734 mates make up the pairs; of these: 2031690 (72.80%) aligned 0 times 515086 (18.46%) aligned exactly 1 time 243958 (8.74%) aligned >1 times 90.20% overall alignment rate Time searching: 00:05:24 Overall time: 00:05:24 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] 317657 / 8967557 = 0.0354 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 21:06:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.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 21:06:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:06:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:06:09: 1000000 INFO @ Sat, 15 Jan 2022 21:06:16: 2000000 INFO @ Sat, 15 Jan 2022 21:06:22: 3000000 INFO @ Sat, 15 Jan 2022 21:06:28: 4000000 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 21:06:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.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 21:06:33: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:06:33: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:06:35: 5000000 INFO @ Sat, 15 Jan 2022 21:06:39: 1000000 INFO @ Sat, 15 Jan 2022 21:06:42: 6000000 INFO @ Sat, 15 Jan 2022 21:06:46: 2000000 INFO @ Sat, 15 Jan 2022 21:06:49: 7000000 INFO @ Sat, 15 Jan 2022 21:06:52: 3000000 INFO @ Sat, 15 Jan 2022 21:06:56: 8000000 INFO @ Sat, 15 Jan 2022 21:06:58: 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 21:07:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.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 21:07:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:07:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:07:04: 9000000 INFO @ Sat, 15 Jan 2022 21:07:04: 5000000 INFO @ Sat, 15 Jan 2022 21:07:10: 1000000 INFO @ Sat, 15 Jan 2022 21:07:10: 6000000 INFO @ Sat, 15 Jan 2022 21:07:11: 10000000 INFO @ Sat, 15 Jan 2022 21:07:17: 7000000 INFO @ Sat, 15 Jan 2022 21:07:17: 2000000 INFO @ Sat, 15 Jan 2022 21:07:18: 11000000 INFO @ Sat, 15 Jan 2022 21:07:23: 8000000 INFO @ Sat, 15 Jan 2022 21:07:25: 3000000 INFO @ Sat, 15 Jan 2022 21:07:25: 12000000 INFO @ Sat, 15 Jan 2022 21:07:30: 9000000 INFO @ Sat, 15 Jan 2022 21:07:32: 4000000 INFO @ Sat, 15 Jan 2022 21:07:32: 13000000 INFO @ Sat, 15 Jan 2022 21:07:36: 10000000 INFO @ Sat, 15 Jan 2022 21:07:39: 5000000 INFO @ Sat, 15 Jan 2022 21:07:40: 14000000 INFO @ Sat, 15 Jan 2022 21:07:43: 11000000 INFO @ Sat, 15 Jan 2022 21:07:46: 6000000 INFO @ Sat, 15 Jan 2022 21:07:47: 15000000 INFO @ Sat, 15 Jan 2022 21:07:49: 12000000 INFO @ Sat, 15 Jan 2022 21:07:53: 7000000 INFO @ Sat, 15 Jan 2022 21:07:54: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:07:56: 13000000 INFO @ Sat, 15 Jan 2022 21:08:00: 8000000 INFO @ Sat, 15 Jan 2022 21:08:01: 17000000 INFO @ Sat, 15 Jan 2022 21:08:02: 14000000 INFO @ Sat, 15 Jan 2022 21:08:08: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:08:08: 15000000 INFO @ Sat, 15 Jan 2022 21:08:08: 18000000 INFO @ Sat, 15 Jan 2022 21:08:09: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:08:09: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:08:09: #1 total tags in treatment: 8204211 INFO @ Sat, 15 Jan 2022 21:08:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:08:09: #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 21:08:09: #1 tags after filtering in treatment: 6195154 INFO @ Sat, 15 Jan 2022 21:08:09: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 21:08:09: #1 finished! INFO @ Sat, 15 Jan 2022 21:08:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:08:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:08:09: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:08:09: 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 21:08:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.05_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/SRX9807985/SRX9807985.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:08:15: 16000000 INFO @ Sat, 15 Jan 2022 21:08:15: 10000000 INFO @ Sat, 15 Jan 2022 21:08:21: 17000000 INFO @ Sat, 15 Jan 2022 21:08:22: 11000000 INFO @ Sat, 15 Jan 2022 21:08:27: 18000000 INFO @ Sat, 15 Jan 2022 21:08:27: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:08:27: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:08:27: #1 total tags in treatment: 8204211 INFO @ Sat, 15 Jan 2022 21:08:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:08:27: #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 21:08:28: #1 tags after filtering in treatment: 6195154 INFO @ Sat, 15 Jan 2022 21:08:28: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 21:08:28: #1 finished! INFO @ Sat, 15 Jan 2022 21:08:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:08:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:08:28: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:08:28: 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 21:08:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.10_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/SRX9807985/SRX9807985.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:08:29: 12000000 INFO @ Sat, 15 Jan 2022 21:08:36: 13000000 INFO @ Sat, 15 Jan 2022 21:08:42: 14000000 INFO @ Sat, 15 Jan 2022 21:08:49: 15000000 INFO @ Sat, 15 Jan 2022 21:08:56: 16000000 INFO @ Sat, 15 Jan 2022 21:09:02: 17000000 INFO @ Sat, 15 Jan 2022 21:09:09: 18000000 INFO @ Sat, 15 Jan 2022 21:09:09: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:09:09: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:09:09: #1 total tags in treatment: 8204211 INFO @ Sat, 15 Jan 2022 21:09:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:09:09: #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 21:09:09: #1 tags after filtering in treatment: 6195154 INFO @ Sat, 15 Jan 2022 21:09:09: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 21:09:09: #1 finished! INFO @ Sat, 15 Jan 2022 21:09:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:09:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:09:10: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:09:10: 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 21:09:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.20_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/SRX9807985/SRX9807985.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9807985/SRX9807985.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling