Job ID = 7107797 SRX = SRX7217636 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14010514 spots for SRR10533713/SRR10533713.sra Written 14010514 spots for SRR10533713/SRR10533713.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: 00:17:31 14010514 reads; of these: 14010514 (100.00%) were paired; of these: 7214644 (51.49%) aligned concordantly 0 times 5220739 (37.26%) aligned concordantly exactly 1 time 1575131 (11.24%) aligned concordantly >1 times ---- 7214644 pairs aligned concordantly 0 times; of these: 2110191 (29.25%) aligned discordantly 1 time ---- 5104453 pairs aligned 0 times concordantly or discordantly; of these: 10208906 mates make up the pairs; of these: 8359553 (81.88%) aligned 0 times 353048 (3.46%) aligned exactly 1 time 1496305 (14.66%) aligned >1 times 70.17% overall alignment rate Time searching: 00:17:31 Overall time: 00:17:31 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 16 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] 2001899 / 8817654 = 0.2270 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:38:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.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 @ Wed, 22 Jul 2020 13:38:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:38:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:38:53: 1000000 INFO @ Wed, 22 Jul 2020 13:39:00: 2000000 INFO @ Wed, 22 Jul 2020 13:39:06: 3000000 INFO @ Wed, 22 Jul 2020 13:39:13: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:39:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.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 @ Wed, 22 Jul 2020 13:39:17: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:39:17: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:39:19: 5000000 INFO @ Wed, 22 Jul 2020 13:39:24: 1000000 INFO @ Wed, 22 Jul 2020 13:39:26: 6000000 INFO @ Wed, 22 Jul 2020 13:39:31: 2000000 INFO @ Wed, 22 Jul 2020 13:39:33: 7000000 INFO @ Wed, 22 Jul 2020 13:39:38: 3000000 INFO @ Wed, 22 Jul 2020 13:39:40: 8000000 INFO @ Wed, 22 Jul 2020 13:39:44: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 13:39:46: 9000000 INFO @ Wed, 22 Jul 2020 13:39:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.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 @ Wed, 22 Jul 2020 13:39:47: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:39:47: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:39:51: 5000000 INFO @ Wed, 22 Jul 2020 13:39:53: 10000000 INFO @ Wed, 22 Jul 2020 13:39:54: 1000000 INFO @ Wed, 22 Jul 2020 13:39:58: 6000000 INFO @ Wed, 22 Jul 2020 13:40:00: 11000000 INFO @ Wed, 22 Jul 2020 13:40:01: 2000000 INFO @ Wed, 22 Jul 2020 13:40:06: 7000000 INFO @ Wed, 22 Jul 2020 13:40:06: 12000000 INFO @ Wed, 22 Jul 2020 13:40:08: 3000000 INFO @ Wed, 22 Jul 2020 13:40:13: 8000000 INFO @ Wed, 22 Jul 2020 13:40:13: 13000000 INFO @ Wed, 22 Jul 2020 13:40:15: 4000000 INFO @ Wed, 22 Jul 2020 13:40:20: 9000000 INFO @ Wed, 22 Jul 2020 13:40:20: 14000000 INFO @ Wed, 22 Jul 2020 13:40:22: 5000000 INFO @ Wed, 22 Jul 2020 13:40:26: 10000000 INFO @ Wed, 22 Jul 2020 13:40:27: 15000000 INFO @ Wed, 22 Jul 2020 13:40:29: 6000000 INFO @ Wed, 22 Jul 2020 13:40:31: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:40:31: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:40:31: #1 total tags in treatment: 5135671 INFO @ Wed, 22 Jul 2020 13:40:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:40:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:40:31: #1 tags after filtering in treatment: 3797044 INFO @ Wed, 22 Jul 2020 13:40:31: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 22 Jul 2020 13:40:31: #1 finished! INFO @ Wed, 22 Jul 2020 13:40:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:40:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:40:32: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 13:40:32: Too few paired peaks (28) 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 @ Wed, 22 Jul 2020 13:40:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:40:33: 11000000 INFO @ Wed, 22 Jul 2020 13:40:36: 7000000 INFO @ Wed, 22 Jul 2020 13:40:40: 12000000 INFO @ Wed, 22 Jul 2020 13:40:43: 8000000 INFO @ Wed, 22 Jul 2020 13:40:47: 13000000 INFO @ Wed, 22 Jul 2020 13:40:50: 9000000 INFO @ Wed, 22 Jul 2020 13:40:54: 14000000 INFO @ Wed, 22 Jul 2020 13:40:56: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:41:01: 15000000 INFO @ Wed, 22 Jul 2020 13:41:03: 11000000 INFO @ Wed, 22 Jul 2020 13:41:05: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:41:05: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:41:05: #1 total tags in treatment: 5135671 INFO @ Wed, 22 Jul 2020 13:41:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:41:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:41:05: #1 tags after filtering in treatment: 3797044 INFO @ Wed, 22 Jul 2020 13:41:05: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 22 Jul 2020 13:41:05: #1 finished! INFO @ Wed, 22 Jul 2020 13:41:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:41:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:41:06: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 13:41:06: Too few paired peaks (28) 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 @ Wed, 22 Jul 2020 13:41:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.10_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/SRX7217636/SRX7217636.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:41:10: 12000000 INFO @ Wed, 22 Jul 2020 13:41:16: 13000000 INFO @ Wed, 22 Jul 2020 13:41:23: 14000000 INFO @ Wed, 22 Jul 2020 13:41:29: 15000000 INFO @ Wed, 22 Jul 2020 13:41:33: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:41:33: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:41:33: #1 total tags in treatment: 5135671 INFO @ Wed, 22 Jul 2020 13:41:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:41:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 13:41:33: #1 tags after filtering in treatment: 3797044 INFO @ Wed, 22 Jul 2020 13:41:33: #1 Redundant rate of treatment: 0.26 INFO @ Wed, 22 Jul 2020 13:41:33: #1 finished! INFO @ Wed, 22 Jul 2020 13:41:33: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:41:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:41:33: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 13:41:33: Too few paired peaks (28) 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 @ Wed, 22 Jul 2020 13:41:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.20_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/SRX7217636/SRX7217636.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217636/SRX7217636.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling