Job ID = 7118065 SRX = SRX8639572 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:10:02 prefetch.2.10.7: 1) Downloading 'SRR12117010'... 2020-07-22T07:10:02 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:11:55 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:11:55 prefetch.2.10.7: 1) 'SRR12117010' was downloaded successfully 2020-07-22T07:11:55 prefetch.2.10.7: 'SRR12117010' has 0 unresolved dependencies Read 23505247 spots for SRR12117010/SRR12117010.sra Written 23505247 spots for SRR12117010/SRR12117010.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: 00:07:03 23505247 reads; of these: 23505247 (100.00%) were paired; of these: 13752554 (58.51%) aligned concordantly 0 times 8831453 (37.57%) aligned concordantly exactly 1 time 921240 (3.92%) aligned concordantly >1 times ---- 13752554 pairs aligned concordantly 0 times; of these: 66067 (0.48%) aligned discordantly 1 time ---- 13686487 pairs aligned 0 times concordantly or discordantly; of these: 27372974 mates make up the pairs; of these: 27226948 (99.47%) aligned 0 times 116897 (0.43%) aligned exactly 1 time 29129 (0.11%) aligned >1 times 42.08% overall alignment rate Time searching: 00:07:03 Overall time: 00:07:03 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 12 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] 122019 / 9811876 = 0.0124 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 16:25:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.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 16:25:14: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:25:14: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:25:19: 1000000 INFO @ Wed, 22 Jul 2020 16:25:24: 2000000 INFO @ Wed, 22 Jul 2020 16:25:30: 3000000 INFO @ Wed, 22 Jul 2020 16:25:35: 4000000 INFO @ Wed, 22 Jul 2020 16:25:40: 5000000 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 16:25:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.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 16:25:43: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:25:43: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:25:45: 6000000 INFO @ Wed, 22 Jul 2020 16:25:49: 1000000 INFO @ Wed, 22 Jul 2020 16:25:51: 7000000 INFO @ Wed, 22 Jul 2020 16:25:54: 2000000 INFO @ Wed, 22 Jul 2020 16:25:56: 8000000 INFO @ Wed, 22 Jul 2020 16:25:59: 3000000 INFO @ Wed, 22 Jul 2020 16:26:02: 9000000 INFO @ Wed, 22 Jul 2020 16:26:05: 4000000 INFO @ Wed, 22 Jul 2020 16:26:07: 10000000 INFO @ Wed, 22 Jul 2020 16:26:10: 5000000 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 16:26:12: 11000000 INFO @ Wed, 22 Jul 2020 16:26:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.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 16:26:13: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:26:13: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:26:16: 6000000 INFO @ Wed, 22 Jul 2020 16:26:18: 12000000 INFO @ Wed, 22 Jul 2020 16:26:19: 1000000 INFO @ Wed, 22 Jul 2020 16:26:21: 7000000 INFO @ Wed, 22 Jul 2020 16:26:23: 13000000 INFO @ Wed, 22 Jul 2020 16:26:24: 2000000 INFO @ Wed, 22 Jul 2020 16:26:26: 8000000 INFO @ Wed, 22 Jul 2020 16:26:28: 14000000 INFO @ Wed, 22 Jul 2020 16:26:30: 3000000 INFO @ Wed, 22 Jul 2020 16:26:32: 9000000 INFO @ Wed, 22 Jul 2020 16:26:34: 15000000 INFO @ Wed, 22 Jul 2020 16:26:35: 4000000 INFO @ Wed, 22 Jul 2020 16:26:37: 10000000 INFO @ Wed, 22 Jul 2020 16:26:39: 16000000 INFO @ Wed, 22 Jul 2020 16:26:40: 5000000 INFO @ Wed, 22 Jul 2020 16:26:43: 11000000 INFO @ Wed, 22 Jul 2020 16:26:45: 17000000 INFO @ Wed, 22 Jul 2020 16:26:46: 6000000 INFO @ Wed, 22 Jul 2020 16:26:49: 12000000 INFO @ Wed, 22 Jul 2020 16:26:50: 18000000 INFO @ Wed, 22 Jul 2020 16:26:51: 7000000 INFO @ Wed, 22 Jul 2020 16:26:54: 13000000 INFO @ Wed, 22 Jul 2020 16:26:55: 19000000 INFO @ Wed, 22 Jul 2020 16:26:56: 8000000 INFO @ Wed, 22 Jul 2020 16:26:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:26:58: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:26:58: #1 total tags in treatment: 9630721 INFO @ Wed, 22 Jul 2020 16:26:58: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:26:58: #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 16:26:58: #1 tags after filtering in treatment: 6703767 INFO @ Wed, 22 Jul 2020 16:26:58: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 16:26:58: #1 finished! INFO @ Wed, 22 Jul 2020 16:26:58: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:26:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:26:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:26:59: 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 16:26:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.05_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/SRX8639572/SRX8639572.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:27:00: 14000000 INFO @ Wed, 22 Jul 2020 16:27:00: 9000000 INFO @ Wed, 22 Jul 2020 16:27:06: 10000000 INFO @ Wed, 22 Jul 2020 16:27:06: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:27:10: 11000000 INFO @ Wed, 22 Jul 2020 16:27:12: 16000000 INFO @ Wed, 22 Jul 2020 16:27:15: 12000000 INFO @ Wed, 22 Jul 2020 16:27:17: 17000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:27:20: 13000000 INFO @ Wed, 22 Jul 2020 16:27:23: 18000000 INFO @ Wed, 22 Jul 2020 16:27:25: 14000000 INFO @ Wed, 22 Jul 2020 16:27:29: 19000000 INFO @ Wed, 22 Jul 2020 16:27:30: 15000000 INFO @ Wed, 22 Jul 2020 16:27:32: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:27:32: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:27:32: #1 total tags in treatment: 9630721 INFO @ Wed, 22 Jul 2020 16:27:32: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:27:32: #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 16:27:32: #1 tags after filtering in treatment: 6703767 INFO @ Wed, 22 Jul 2020 16:27:32: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 16:27:32: #1 finished! INFO @ Wed, 22 Jul 2020 16:27:32: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:27:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:27:32: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:27:32: 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 16:27:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.10_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/SRX8639572/SRX8639572.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:27:35: 16000000 INFO @ Wed, 22 Jul 2020 16:27:40: 17000000 INFO @ Wed, 22 Jul 2020 16:27:44: 18000000 INFO @ Wed, 22 Jul 2020 16:27:49: 19000000 INFO @ Wed, 22 Jul 2020 16:27:52: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:27:52: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:27:52: #1 total tags in treatment: 9630721 INFO @ Wed, 22 Jul 2020 16:27:52: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:27:52: #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 16:27:52: #1 tags after filtering in treatment: 6703767 INFO @ Wed, 22 Jul 2020 16:27:52: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 16:27:52: #1 finished! INFO @ Wed, 22 Jul 2020 16:27:52: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:27:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:27:52: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:27:52: 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 16:27:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.20_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/SRX8639572/SRX8639572.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639572/SRX8639572.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling