Job ID = 7116557 SRX = SRX8639480 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:16:33 prefetch.2.10.7: 1) Downloading 'SRR12117044'... 2020-07-22T06:16:33 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:18:39 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:18:39 prefetch.2.10.7: 1) 'SRR12117044' was downloaded successfully 2020-07-22T06:18:39 prefetch.2.10.7: 'SRR12117044' has 0 unresolved dependencies Read 24143059 spots for SRR12117044/SRR12117044.sra Written 24143059 spots for SRR12117044/SRR12117044.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: 00:08:56 24143059 reads; of these: 24143059 (100.00%) were paired; of these: 12616860 (52.26%) aligned concordantly 0 times 10598144 (43.90%) aligned concordantly exactly 1 time 928055 (3.84%) aligned concordantly >1 times ---- 12616860 pairs aligned concordantly 0 times; of these: 347997 (2.76%) aligned discordantly 1 time ---- 12268863 pairs aligned 0 times concordantly or discordantly; of these: 24537726 mates make up the pairs; of these: 24349944 (99.23%) aligned 0 times 116492 (0.47%) aligned exactly 1 time 71290 (0.29%) aligned >1 times 49.57% overall alignment rate Time searching: 00:08:56 Overall time: 00:08:56 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] 128417 / 11853524 = 0.0108 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 15:35:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.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 15:35:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:07: 1000000 INFO @ Wed, 22 Jul 2020 15:35:11: 2000000 INFO @ Wed, 22 Jul 2020 15:35:16: 3000000 INFO @ Wed, 22 Jul 2020 15:35:20: 4000000 INFO @ Wed, 22 Jul 2020 15:35:25: 5000000 INFO @ Wed, 22 Jul 2020 15:35:29: 6000000 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 15:35:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.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 15:35:32: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:35:32: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:35:34: 7000000 INFO @ Wed, 22 Jul 2020 15:35:37: 1000000 INFO @ Wed, 22 Jul 2020 15:35:39: 8000000 INFO @ Wed, 22 Jul 2020 15:35:41: 2000000 INFO @ Wed, 22 Jul 2020 15:35:44: 9000000 INFO @ Wed, 22 Jul 2020 15:35:46: 3000000 INFO @ Wed, 22 Jul 2020 15:35:48: 10000000 INFO @ Wed, 22 Jul 2020 15:35:51: 4000000 INFO @ Wed, 22 Jul 2020 15:35:53: 11000000 INFO @ Wed, 22 Jul 2020 15:35:55: 5000000 INFO @ Wed, 22 Jul 2020 15:35:57: 12000000 INFO @ Wed, 22 Jul 2020 15:36:00: 6000000 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 15:36:02: 13000000 INFO @ Wed, 22 Jul 2020 15:36:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.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 15:36:02: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:36:02: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:36:05: 7000000 INFO @ Wed, 22 Jul 2020 15:36:07: 14000000 INFO @ Wed, 22 Jul 2020 15:36:07: 1000000 INFO @ Wed, 22 Jul 2020 15:36:10: 8000000 INFO @ Wed, 22 Jul 2020 15:36:11: 15000000 INFO @ Wed, 22 Jul 2020 15:36:12: 2000000 INFO @ Wed, 22 Jul 2020 15:36:14: 9000000 INFO @ Wed, 22 Jul 2020 15:36:16: 16000000 INFO @ Wed, 22 Jul 2020 15:36:17: 3000000 INFO @ Wed, 22 Jul 2020 15:36:19: 10000000 INFO @ Wed, 22 Jul 2020 15:36:21: 17000000 INFO @ Wed, 22 Jul 2020 15:36:21: 4000000 INFO @ Wed, 22 Jul 2020 15:36:23: 11000000 INFO @ Wed, 22 Jul 2020 15:36:25: 18000000 INFO @ Wed, 22 Jul 2020 15:36:26: 5000000 INFO @ Wed, 22 Jul 2020 15:36:28: 12000000 INFO @ Wed, 22 Jul 2020 15:36:30: 19000000 INFO @ Wed, 22 Jul 2020 15:36:31: 6000000 INFO @ Wed, 22 Jul 2020 15:36:33: 13000000 INFO @ Wed, 22 Jul 2020 15:36:35: 20000000 INFO @ Wed, 22 Jul 2020 15:36:36: 7000000 INFO @ Wed, 22 Jul 2020 15:36:37: 14000000 INFO @ Wed, 22 Jul 2020 15:36:39: 21000000 INFO @ Wed, 22 Jul 2020 15:36:40: 8000000 INFO @ Wed, 22 Jul 2020 15:36:42: 15000000 INFO @ Wed, 22 Jul 2020 15:36:44: 22000000 INFO @ Wed, 22 Jul 2020 15:36:45: 9000000 INFO @ Wed, 22 Jul 2020 15:36:46: 16000000 INFO @ Wed, 22 Jul 2020 15:36:49: 23000000 INFO @ Wed, 22 Jul 2020 15:36:50: 10000000 INFO @ Wed, 22 Jul 2020 15:36:51: 17000000 INFO @ Wed, 22 Jul 2020 15:36:52: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:36:52: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:36:52: #1 total tags in treatment: 11399350 INFO @ Wed, 22 Jul 2020 15:36:52: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:36:52: #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 15:36:52: #1 tags after filtering in treatment: 7844404 INFO @ Wed, 22 Jul 2020 15:36:52: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 15:36:52: #1 finished! INFO @ Wed, 22 Jul 2020 15:36:52: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:36:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:36:53: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:36:53: 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 15:36:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.05_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/SRX8639480/SRX8639480.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:36:54: 11000000 INFO @ Wed, 22 Jul 2020 15:36:55: 18000000 INFO @ Wed, 22 Jul 2020 15:36:59: 12000000 INFO @ Wed, 22 Jul 2020 15:37:00: 19000000 INFO @ Wed, 22 Jul 2020 15:37:04: 13000000 INFO @ Wed, 22 Jul 2020 15:37:04: 20000000 INFO @ Wed, 22 Jul 2020 15:37:08: 14000000 INFO @ Wed, 22 Jul 2020 15:37:09: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:37:13: 15000000 INFO @ Wed, 22 Jul 2020 15:37:13: 22000000 INFO @ Wed, 22 Jul 2020 15:37:17: 16000000 INFO @ Wed, 22 Jul 2020 15:37:18: 23000000 INFO @ Wed, 22 Jul 2020 15:37:21: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:37:21: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:37:21: #1 total tags in treatment: 11399350 INFO @ Wed, 22 Jul 2020 15:37:21: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:37:21: #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 15:37:21: #1 tags after filtering in treatment: 7844404 INFO @ Wed, 22 Jul 2020 15:37:21: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 15:37:21: #1 finished! INFO @ Wed, 22 Jul 2020 15:37:21: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:37:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:37:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:37:21: 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 15:37:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.10_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/SRX8639480/SRX8639480.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:37:22: 17000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:37:26: 18000000 INFO @ Wed, 22 Jul 2020 15:37:30: 19000000 INFO @ Wed, 22 Jul 2020 15:37:35: 20000000 INFO @ Wed, 22 Jul 2020 15:37:39: 21000000 INFO @ Wed, 22 Jul 2020 15:37:44: 22000000 INFO @ Wed, 22 Jul 2020 15:37:48: 23000000 INFO @ Wed, 22 Jul 2020 15:37:51: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:37:51: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:37:51: #1 total tags in treatment: 11399350 INFO @ Wed, 22 Jul 2020 15:37:51: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:37:51: #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 15:37:51: #1 tags after filtering in treatment: 7844404 INFO @ Wed, 22 Jul 2020 15:37:51: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 15:37:51: #1 finished! INFO @ Wed, 22 Jul 2020 15:37:51: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:37:51: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:37:52: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:37:52: 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 15:37:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.20_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/SRX8639480/SRX8639480.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639480/SRX8639480.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling