Job ID = 14521863 SRX = SRX4623304 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12331675 spots for SRR7767709/SRR7767709.sra Written 12331675 spots for SRR7767709/SRR7767709.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: 00:09:55 12331675 reads; of these: 12331675 (100.00%) were paired; of these: 2200428 (17.84%) aligned concordantly 0 times 7917985 (64.21%) aligned concordantly exactly 1 time 2213262 (17.95%) aligned concordantly >1 times ---- 2200428 pairs aligned concordantly 0 times; of these: 582537 (26.47%) aligned discordantly 1 time ---- 1617891 pairs aligned 0 times concordantly or discordantly; of these: 3235782 mates make up the pairs; of these: 2714668 (83.90%) aligned 0 times 199714 (6.17%) aligned exactly 1 time 321400 (9.93%) aligned >1 times 88.99% overall alignment rate Time searching: 00:09:55 Overall time: 00:09:55 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] 446867 / 10705218 = 0.0417 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 22:01:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.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 22:01:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:01:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:01:47: 1000000 INFO @ Sat, 15 Jan 2022 22:01:55: 2000000 INFO @ Sat, 15 Jan 2022 22:02:03: 3000000 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 22:02:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.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 22:02:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:11: 4000000 INFO @ Sat, 15 Jan 2022 22:02:14: 1000000 INFO @ Sat, 15 Jan 2022 22:02:20: 5000000 INFO @ Sat, 15 Jan 2022 22:02:20: 2000000 INFO @ Sat, 15 Jan 2022 22:02:26: 3000000 INFO @ Sat, 15 Jan 2022 22:02:28: 6000000 INFO @ Sat, 15 Jan 2022 22:02:32: 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 22:02:37: 7000000 INFO @ Sat, 15 Jan 2022 22:02:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.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 22:02:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:39: 5000000 INFO @ Sat, 15 Jan 2022 22:02:45: 6000000 INFO @ Sat, 15 Jan 2022 22:02:46: 8000000 INFO @ Sat, 15 Jan 2022 22:02:47: 1000000 INFO @ Sat, 15 Jan 2022 22:02:51: 7000000 INFO @ Sat, 15 Jan 2022 22:02:56: 9000000 INFO @ Sat, 15 Jan 2022 22:02:57: 2000000 INFO @ Sat, 15 Jan 2022 22:02:57: 8000000 INFO @ Sat, 15 Jan 2022 22:03:04: 9000000 INFO @ Sat, 15 Jan 2022 22:03:06: 10000000 INFO @ Sat, 15 Jan 2022 22:03:07: 3000000 INFO @ Sat, 15 Jan 2022 22:03:10: 10000000 INFO @ Sat, 15 Jan 2022 22:03:14: 11000000 INFO @ Sat, 15 Jan 2022 22:03:16: 4000000 INFO @ Sat, 15 Jan 2022 22:03:16: 11000000 INFO @ Sat, 15 Jan 2022 22:03:22: 12000000 INFO @ Sat, 15 Jan 2022 22:03:24: 12000000 INFO @ Sat, 15 Jan 2022 22:03:25: 5000000 INFO @ Sat, 15 Jan 2022 22:03:29: 13000000 INFO @ Sat, 15 Jan 2022 22:03:33: 13000000 INFO @ Sat, 15 Jan 2022 22:03:34: 6000000 INFO @ Sat, 15 Jan 2022 22:03:35: 14000000 INFO @ Sat, 15 Jan 2022 22:03:40: 14000000 INFO @ Sat, 15 Jan 2022 22:03:41: 15000000 INFO @ Sat, 15 Jan 2022 22:03:43: 7000000 INFO @ Sat, 15 Jan 2022 22:03:47: 16000000 INFO @ Sat, 15 Jan 2022 22:03:49: 15000000 INFO @ Sat, 15 Jan 2022 22:03:51: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:03:54: 17000000 INFO @ Sat, 15 Jan 2022 22:03:56: 16000000 INFO @ Sat, 15 Jan 2022 22:04:00: 9000000 INFO @ Sat, 15 Jan 2022 22:04:02: 18000000 INFO @ Sat, 15 Jan 2022 22:04:03: 17000000 INFO @ Sat, 15 Jan 2022 22:04:09: 19000000 INFO @ Sat, 15 Jan 2022 22:04:09: 10000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:04:12: 18000000 INFO @ Sat, 15 Jan 2022 22:04:15: 20000000 INFO @ Sat, 15 Jan 2022 22:04:18: 11000000 INFO @ Sat, 15 Jan 2022 22:04:19: 19000000 INFO @ Sat, 15 Jan 2022 22:04:21: 21000000 INFO @ Sat, 15 Jan 2022 22:04:22: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:04:22: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:04:22: #1 total tags in treatment: 9690502 INFO @ Sat, 15 Jan 2022 22:04:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:04:22: #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 22:04:22: #1 tags after filtering in treatment: 6926571 INFO @ Sat, 15 Jan 2022 22:04:22: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 22:04:22: #1 finished! INFO @ Sat, 15 Jan 2022 22:04:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:04:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:04:23: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:04:23: 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 22:04:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:04:25: 20000000 INFO @ Sat, 15 Jan 2022 22:04:27: 12000000 INFO @ Sat, 15 Jan 2022 22:04:32: 21000000 INFO @ Sat, 15 Jan 2022 22:04:33: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:04:33: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:04:33: #1 total tags in treatment: 9690502 INFO @ Sat, 15 Jan 2022 22:04:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:04:33: #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 22:04:33: #1 tags after filtering in treatment: 6926571 INFO @ Sat, 15 Jan 2022 22:04:33: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 22:04:33: #1 finished! INFO @ Sat, 15 Jan 2022 22:04:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:04:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:04:33: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:04:33: 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 22:04:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:04:36: 13000000 INFO @ Sat, 15 Jan 2022 22:04:44: 14000000 INFO @ Sat, 15 Jan 2022 22:04:52: 15000000 INFO @ Sat, 15 Jan 2022 22:05:00: 16000000 INFO @ Sat, 15 Jan 2022 22:05:08: 17000000 INFO @ Sat, 15 Jan 2022 22:05:16: 18000000 INFO @ Sat, 15 Jan 2022 22:05:25: 19000000 INFO @ Sat, 15 Jan 2022 22:05:32: 20000000 INFO @ Sat, 15 Jan 2022 22:05:41: 21000000 INFO @ Sat, 15 Jan 2022 22:05:41: #1 tag size is determined as 25 bps INFO @ Sat, 15 Jan 2022 22:05:41: #1 tag size = 25 INFO @ Sat, 15 Jan 2022 22:05:41: #1 total tags in treatment: 9690502 INFO @ Sat, 15 Jan 2022 22:05:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:05:41: #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 22:05:41: #1 tags after filtering in treatment: 6926571 INFO @ Sat, 15 Jan 2022 22:05:41: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 22:05:41: #1 finished! INFO @ Sat, 15 Jan 2022 22:05:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:05:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:05:42: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 22:05:42: 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 22:05:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.20_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/SRX4623304/SRX4623304.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623304/SRX4623304.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling