Job ID = 7108078 SRX = SRX7438931 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 12195721 spots for SRR10764997/SRR10764997.sra Written 12195721 spots for SRR10764997/SRR10764997.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: 00:05:12 12195721 reads; of these: 12195721 (100.00%) were paired; of these: 3945837 (32.35%) aligned concordantly 0 times 7069138 (57.96%) aligned concordantly exactly 1 time 1180746 (9.68%) aligned concordantly >1 times ---- 3945837 pairs aligned concordantly 0 times; of these: 1063848 (26.96%) aligned discordantly 1 time ---- 2881989 pairs aligned 0 times concordantly or discordantly; of these: 5763978 mates make up the pairs; of these: 5274832 (91.51%) aligned 0 times 125425 (2.18%) aligned exactly 1 time 363721 (6.31%) aligned >1 times 78.37% overall alignment rate Time searching: 00:05:12 Overall time: 00:05:12 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] 535178 / 9284300 = 0.0576 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 13:33:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.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 13:33:25: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:33:25: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:33:32: 1000000 INFO @ Wed, 22 Jul 2020 13:33:39: 2000000 INFO @ Wed, 22 Jul 2020 13:33:46: 3000000 INFO @ Wed, 22 Jul 2020 13:33:53: 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 13:33:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.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 13:33:55: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:33:55: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:34:00: 5000000 INFO @ Wed, 22 Jul 2020 13:34:02: 1000000 INFO @ Wed, 22 Jul 2020 13:34:08: 6000000 INFO @ Wed, 22 Jul 2020 13:34:09: 2000000 INFO @ Wed, 22 Jul 2020 13:34:16: 7000000 INFO @ Wed, 22 Jul 2020 13:34:17: 3000000 BedGraph に変換中... INFO @ Wed, 22 Jul 2020 13:34:23: 8000000 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 13:34:24: 4000000 INFO @ Wed, 22 Jul 2020 13:34:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.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 13:34:25: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:34:25: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:34:31: 9000000 INFO @ Wed, 22 Jul 2020 13:34:31: 5000000 INFO @ Wed, 22 Jul 2020 13:34:33: 1000000 INFO @ Wed, 22 Jul 2020 13:34:38: 6000000 INFO @ Wed, 22 Jul 2020 13:34:39: 10000000 INFO @ Wed, 22 Jul 2020 13:34:41: 2000000 INFO @ Wed, 22 Jul 2020 13:34:46: 7000000 INFO @ Wed, 22 Jul 2020 13:34:47: 11000000 INFO @ Wed, 22 Jul 2020 13:34:49: 3000000 INFO @ Wed, 22 Jul 2020 13:34:53: 8000000 INFO @ Wed, 22 Jul 2020 13:34:55: 12000000 INFO @ Wed, 22 Jul 2020 13:34:56: 4000000 INFO @ Wed, 22 Jul 2020 13:35:00: 9000000 INFO @ Wed, 22 Jul 2020 13:35:02: 13000000 INFO @ Wed, 22 Jul 2020 13:35:04: 5000000 INFO @ Wed, 22 Jul 2020 13:35:07: 10000000 INFO @ Wed, 22 Jul 2020 13:35:10: 14000000 INFO @ Wed, 22 Jul 2020 13:35:12: 6000000 INFO @ Wed, 22 Jul 2020 13:35:14: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:35:18: 15000000 INFO @ Wed, 22 Jul 2020 13:35:20: 7000000 INFO @ Wed, 22 Jul 2020 13:35:21: 12000000 INFO @ Wed, 22 Jul 2020 13:35:26: 16000000 INFO @ Wed, 22 Jul 2020 13:35:28: 8000000 INFO @ Wed, 22 Jul 2020 13:35:28: 13000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:35:34: 17000000 INFO @ Wed, 22 Jul 2020 13:35:35: 14000000 INFO @ Wed, 22 Jul 2020 13:35:35: 9000000 INFO @ Wed, 22 Jul 2020 13:35:42: 18000000 INFO @ Wed, 22 Jul 2020 13:35:42: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 13:35:42: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 13:35:42: #1 total tags in treatment: 7757425 INFO @ Wed, 22 Jul 2020 13:35:42: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:35:42: #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 13:35:42: #1 tags after filtering in treatment: 6102473 INFO @ Wed, 22 Jul 2020 13:35:42: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Jul 2020 13:35:42: #1 finished! INFO @ Wed, 22 Jul 2020 13:35:42: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:35:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:35:42: 15000000 INFO @ Wed, 22 Jul 2020 13:35:43: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:35:43: 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 @ Wed, 22 Jul 2020 13:35:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.05_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/SRX7438931/SRX7438931.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:35:43: 10000000 INFO @ Wed, 22 Jul 2020 13:35:49: 16000000 INFO @ Wed, 22 Jul 2020 13:35:51: 11000000 INFO @ Wed, 22 Jul 2020 13:35:56: 17000000 INFO @ Wed, 22 Jul 2020 13:35:58: 12000000 INFO @ Wed, 22 Jul 2020 13:36:03: 18000000 INFO @ Wed, 22 Jul 2020 13:36:04: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 13:36:04: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 13:36:04: #1 total tags in treatment: 7757425 INFO @ Wed, 22 Jul 2020 13:36:04: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:36:04: #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 13:36:04: #1 tags after filtering in treatment: 6102473 INFO @ Wed, 22 Jul 2020 13:36:04: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Jul 2020 13:36:04: #1 finished! INFO @ Wed, 22 Jul 2020 13:36:04: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:36:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:36:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:36:04: 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 @ Wed, 22 Jul 2020 13:36:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.10_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/SRX7438931/SRX7438931.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:36:06: 13000000 INFO @ Wed, 22 Jul 2020 13:36:13: 14000000 INFO @ Wed, 22 Jul 2020 13:36:20: 15000000 INFO @ Wed, 22 Jul 2020 13:36:27: 16000000 INFO @ Wed, 22 Jul 2020 13:36:33: 17000000 INFO @ Wed, 22 Jul 2020 13:36:40: 18000000 INFO @ Wed, 22 Jul 2020 13:36:40: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 13:36:40: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 13:36:40: #1 total tags in treatment: 7757425 INFO @ Wed, 22 Jul 2020 13:36:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:36:40: #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 13:36:40: #1 tags after filtering in treatment: 6102473 INFO @ Wed, 22 Jul 2020 13:36:40: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 22 Jul 2020 13:36:40: #1 finished! INFO @ Wed, 22 Jul 2020 13:36:40: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:36:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:36:41: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:36:41: 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 @ Wed, 22 Jul 2020 13:36:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.20_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/SRX7438931/SRX7438931.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7438931/SRX7438931.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling