Job ID = 6527991 SRX = SRX3632918 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:15:06 prefetch.2.10.7: 1) Downloading 'SRR6655570'... 2020-06-29T14:15:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:17:05 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:17:05 prefetch.2.10.7: 1) 'SRR6655570' was downloaded successfully 2020-06-29T14:17:05 prefetch.2.10.7: 'SRR6655570' has 0 unresolved dependencies Read 14562705 spots for SRR6655570/SRR6655570.sra Written 14562705 spots for SRR6655570/SRR6655570.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: 00:28:09 14562705 reads; of these: 14562705 (100.00%) were paired; of these: 941521 (6.47%) aligned concordantly 0 times 10842947 (74.46%) aligned concordantly exactly 1 time 2778237 (19.08%) aligned concordantly >1 times ---- 941521 pairs aligned concordantly 0 times; of these: 215947 (22.94%) aligned discordantly 1 time ---- 725574 pairs aligned 0 times concordantly or discordantly; of these: 1451148 mates make up the pairs; of these: 778580 (53.65%) aligned 0 times 412974 (28.46%) aligned exactly 1 time 259594 (17.89%) aligned >1 times 97.33% overall alignment rate Time searching: 00:28:09 Overall time: 00:28:09 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 877480 / 13763637 = 0.0638 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 @ Tue, 30 Jun 2020 00:00:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 00:00:33: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:00:33: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:00:40: 1000000 INFO @ Tue, 30 Jun 2020 00:00:48: 2000000 INFO @ Tue, 30 Jun 2020 00:00:55: 3000000 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 @ Tue, 30 Jun 2020 00:01:02: 4000000 INFO @ Tue, 30 Jun 2020 00:01:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 00:01:03: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:01:03: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:01:10: 5000000 INFO @ Tue, 30 Jun 2020 00:01:11: 1000000 INFO @ Tue, 30 Jun 2020 00:01:18: 2000000 INFO @ Tue, 30 Jun 2020 00:01:18: 6000000 INFO @ Tue, 30 Jun 2020 00:01:25: 3000000 INFO @ Tue, 30 Jun 2020 00:01:26: 7000000 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 @ Tue, 30 Jun 2020 00:01:33: 4000000 INFO @ Tue, 30 Jun 2020 00:01:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 00:01:33: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:01:33: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:01:34: 8000000 INFO @ Tue, 30 Jun 2020 00:01:40: 5000000 INFO @ Tue, 30 Jun 2020 00:01:41: 1000000 INFO @ Tue, 30 Jun 2020 00:01:43: 9000000 INFO @ Tue, 30 Jun 2020 00:01:48: 6000000 INFO @ Tue, 30 Jun 2020 00:01:48: 2000000 INFO @ Tue, 30 Jun 2020 00:01:51: 10000000 INFO @ Tue, 30 Jun 2020 00:01:55: 7000000 INFO @ Tue, 30 Jun 2020 00:01:56: 3000000 INFO @ Tue, 30 Jun 2020 00:01:59: 11000000 INFO @ Tue, 30 Jun 2020 00:02:02: 8000000 INFO @ Tue, 30 Jun 2020 00:02:03: 4000000 INFO @ Tue, 30 Jun 2020 00:02:07: 12000000 INFO @ Tue, 30 Jun 2020 00:02:10: 9000000 INFO @ Tue, 30 Jun 2020 00:02:10: 5000000 INFO @ Tue, 30 Jun 2020 00:02:16: 13000000 INFO @ Tue, 30 Jun 2020 00:02:17: 10000000 INFO @ Tue, 30 Jun 2020 00:02:18: 6000000 INFO @ Tue, 30 Jun 2020 00:02:24: 14000000 INFO @ Tue, 30 Jun 2020 00:02:24: 11000000 INFO @ Tue, 30 Jun 2020 00:02:25: 7000000 INFO @ Tue, 30 Jun 2020 00:02:32: 12000000 INFO @ Tue, 30 Jun 2020 00:02:32: 15000000 INFO @ Tue, 30 Jun 2020 00:02:32: 8000000 INFO @ Tue, 30 Jun 2020 00:02:39: 13000000 INFO @ Tue, 30 Jun 2020 00:02:39: 9000000 INFO @ Tue, 30 Jun 2020 00:02:40: 16000000 INFO @ Tue, 30 Jun 2020 00:02:46: 14000000 INFO @ Tue, 30 Jun 2020 00:02:47: 10000000 INFO @ Tue, 30 Jun 2020 00:02:48: 17000000 INFO @ Tue, 30 Jun 2020 00:02:54: 15000000 INFO @ Tue, 30 Jun 2020 00:02:54: 11000000 INFO @ Tue, 30 Jun 2020 00:02:56: 18000000 INFO @ Tue, 30 Jun 2020 00:03:01: 16000000 INFO @ Tue, 30 Jun 2020 00:03:02: 12000000 INFO @ Tue, 30 Jun 2020 00:03:04: 19000000 INFO @ Tue, 30 Jun 2020 00:03:08: 17000000 INFO @ Tue, 30 Jun 2020 00:03:09: 13000000 INFO @ Tue, 30 Jun 2020 00:03:12: 20000000 INFO @ Tue, 30 Jun 2020 00:03:15: 18000000 INFO @ Tue, 30 Jun 2020 00:03:16: 14000000 INFO @ Tue, 30 Jun 2020 00:03:20: 21000000 INFO @ Tue, 30 Jun 2020 00:03:23: 19000000 INFO @ Tue, 30 Jun 2020 00:03:23: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:03:29: 22000000 INFO @ Tue, 30 Jun 2020 00:03:30: 20000000 INFO @ Tue, 30 Jun 2020 00:03:30: 16000000 INFO @ Tue, 30 Jun 2020 00:03:37: 23000000 INFO @ Tue, 30 Jun 2020 00:03:37: 21000000 INFO @ Tue, 30 Jun 2020 00:03:37: 17000000 INFO @ Tue, 30 Jun 2020 00:03:44: 22000000 INFO @ Tue, 30 Jun 2020 00:03:44: 18000000 INFO @ Tue, 30 Jun 2020 00:03:45: 24000000 INFO @ Tue, 30 Jun 2020 00:03:51: 23000000 INFO @ Tue, 30 Jun 2020 00:03:51: 19000000 INFO @ Tue, 30 Jun 2020 00:03:53: 25000000 INFO @ Tue, 30 Jun 2020 00:03:58: 20000000 INFO @ Tue, 30 Jun 2020 00:03:58: 24000000 INFO @ Tue, 30 Jun 2020 00:04:01: 26000000 INFO @ Tue, 30 Jun 2020 00:04:05: 21000000 INFO @ Tue, 30 Jun 2020 00:04:06: 25000000 INFO @ Tue, 30 Jun 2020 00:04:06: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:04:06: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:04:06: #1 total tags in treatment: 12750139 INFO @ Tue, 30 Jun 2020 00:04:06: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:04:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:04:06: #1 tags after filtering in treatment: 10962170 INFO @ Tue, 30 Jun 2020 00:04:06: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 00:04:06: #1 finished! INFO @ Tue, 30 Jun 2020 00:04:06: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:04:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:04:07: #2 number of paired peaks: 43 WARNING @ Tue, 30 Jun 2020 00:04:07: Too few paired peaks (43) 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 @ Tue, 30 Jun 2020 00:04:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.05_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/dm3/SRX3632918/SRX3632918.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:04:13: 22000000 INFO @ Tue, 30 Jun 2020 00:04:13: 26000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:04:17: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:04:17: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:04:17: #1 total tags in treatment: 12750139 INFO @ Tue, 30 Jun 2020 00:04:17: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:04:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:04:17: #1 tags after filtering in treatment: 10962170 INFO @ Tue, 30 Jun 2020 00:04:17: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 00:04:17: #1 finished! INFO @ Tue, 30 Jun 2020 00:04:17: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:04:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:04:18: #2 number of paired peaks: 43 WARNING @ Tue, 30 Jun 2020 00:04:18: Too few paired peaks (43) 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 @ Tue, 30 Jun 2020 00:04:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.10_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/dm3/SRX3632918/SRX3632918.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:04:19: 23000000 INFO @ Tue, 30 Jun 2020 00:04:26: 24000000 INFO @ Tue, 30 Jun 2020 00:04:32: 25000000 INFO @ Tue, 30 Jun 2020 00:04:39: 26000000 INFO @ Tue, 30 Jun 2020 00:04:42: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:04:42: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:04:42: #1 total tags in treatment: 12750139 INFO @ Tue, 30 Jun 2020 00:04:42: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:04:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:04:43: #1 tags after filtering in treatment: 10962170 INFO @ Tue, 30 Jun 2020 00:04:43: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 00:04:43: #1 finished! INFO @ Tue, 30 Jun 2020 00:04:43: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:04:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:04:43: #2 number of paired peaks: 43 WARNING @ Tue, 30 Jun 2020 00:04:43: Too few paired peaks (43) 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 @ Tue, 30 Jun 2020 00:04:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.20_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/dm3/SRX3632918/SRX3632918.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632918/SRX3632918.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling