Job ID = 6528424 SRX = SRX6386779 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:58:44 prefetch.2.10.7: 1) Downloading 'SRR9624511'... 2020-06-29T14:58:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:46:28 prefetch.2.10.7: HTTPS download failed 2020-06-29T15:46:28 prefetch.2.10.7: 1) failed to download SRR9624511 2020-06-29T15:46:38 prefetch.2.10.7: 1) Downloading 'SRR9624511'... 2020-06-29T15:46:38 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:46:38 prefetch.2.10.7: Continue download of 'SRR9624511' from 7511033701 2020-06-29T15:46:43 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:46:43 prefetch.2.10.7: 1) 'SRR9624511' was downloaded successfully 2020-06-29T15:46:43 prefetch.2.10.7: 'SRR9624511' has 0 unresolved dependencies Read 58074521 spots for SRR9624511/SRR9624511.sra Written 58074521 spots for SRR9624511/SRR9624511.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: 00:00:01 Multiseed full-index search: 02:26:29 58074521 reads; of these: 58074521 (100.00%) were paired; of these: 8167449 (14.06%) aligned concordantly 0 times 42914833 (73.90%) aligned concordantly exactly 1 time 6992239 (12.04%) aligned concordantly >1 times ---- 8167449 pairs aligned concordantly 0 times; of these: 2727937 (33.40%) aligned discordantly 1 time ---- 5439512 pairs aligned 0 times concordantly or discordantly; of these: 10879024 mates make up the pairs; of these: 8347797 (76.73%) aligned 0 times 1349497 (12.40%) aligned exactly 1 time 1181730 (10.86%) aligned >1 times 92.81% overall alignment rate Time searching: 02:26:30 Overall time: 02:26:31 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 80 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] 32844913 / 52337907 = 0.6276 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 05:29:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.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 05:29:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 05:29:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 05:29:12: 1000000 INFO @ Tue, 30 Jun 2020 05:29:19: 2000000 INFO @ Tue, 30 Jun 2020 05:29:25: 3000000 INFO @ Tue, 30 Jun 2020 05:29:32: 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 @ Tue, 30 Jun 2020 05:29:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.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 05:29:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 05:29:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 05:29:39: 5000000 INFO @ Tue, 30 Jun 2020 05:29:42: 1000000 INFO @ Tue, 30 Jun 2020 05:29:46: 6000000 INFO @ Tue, 30 Jun 2020 05:29:50: 2000000 INFO @ Tue, 30 Jun 2020 05:29:54: 7000000 INFO @ Tue, 30 Jun 2020 05:29:57: 3000000 INFO @ Tue, 30 Jun 2020 05:30:01: 8000000 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 05:30:04: 4000000 INFO @ Tue, 30 Jun 2020 05:30:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.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 05:30:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 05:30:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 05:30:08: 9000000 INFO @ Tue, 30 Jun 2020 05:30:12: 5000000 INFO @ Tue, 30 Jun 2020 05:30:14: 1000000 INFO @ Tue, 30 Jun 2020 05:30:16: 10000000 INFO @ Tue, 30 Jun 2020 05:30:19: 6000000 INFO @ Tue, 30 Jun 2020 05:30:23: 2000000 INFO @ Tue, 30 Jun 2020 05:30:23: 11000000 INFO @ Tue, 30 Jun 2020 05:30:27: 7000000 INFO @ Tue, 30 Jun 2020 05:30:31: 12000000 INFO @ Tue, 30 Jun 2020 05:30:32: 3000000 INFO @ Tue, 30 Jun 2020 05:30:35: 8000000 INFO @ Tue, 30 Jun 2020 05:30:39: 13000000 INFO @ Tue, 30 Jun 2020 05:30:41: 4000000 INFO @ Tue, 30 Jun 2020 05:30:42: 9000000 INFO @ Tue, 30 Jun 2020 05:30:46: 14000000 INFO @ Tue, 30 Jun 2020 05:30:50: 5000000 INFO @ Tue, 30 Jun 2020 05:30:50: 10000000 INFO @ Tue, 30 Jun 2020 05:30:54: 15000000 INFO @ Tue, 30 Jun 2020 05:30:58: 11000000 INFO @ Tue, 30 Jun 2020 05:30:59: 6000000 INFO @ Tue, 30 Jun 2020 05:31:02: 16000000 INFO @ Tue, 30 Jun 2020 05:31:06: 12000000 INFO @ Tue, 30 Jun 2020 05:31:08: 7000000 INFO @ Tue, 30 Jun 2020 05:31:09: 17000000 INFO @ Tue, 30 Jun 2020 05:31:14: 13000000 INFO @ Tue, 30 Jun 2020 05:31:17: 18000000 INFO @ Tue, 30 Jun 2020 05:31:17: 8000000 INFO @ Tue, 30 Jun 2020 05:31:21: 14000000 INFO @ Tue, 30 Jun 2020 05:31:25: 19000000 INFO @ Tue, 30 Jun 2020 05:31:26: 9000000 INFO @ Tue, 30 Jun 2020 05:31:29: 15000000 INFO @ Tue, 30 Jun 2020 05:31:32: 20000000 INFO @ Tue, 30 Jun 2020 05:31:35: 10000000 INFO @ Tue, 30 Jun 2020 05:31:37: 16000000 INFO @ Tue, 30 Jun 2020 05:31:40: 21000000 INFO @ Tue, 30 Jun 2020 05:31:44: 17000000 INFO @ Tue, 30 Jun 2020 05:31:44: 11000000 INFO @ Tue, 30 Jun 2020 05:31:47: 22000000 INFO @ Tue, 30 Jun 2020 05:31:52: 18000000 INFO @ Tue, 30 Jun 2020 05:31:54: 12000000 INFO @ Tue, 30 Jun 2020 05:31:55: 23000000 INFO @ Tue, 30 Jun 2020 05:31:59: 19000000 INFO @ Tue, 30 Jun 2020 05:32:02: 24000000 INFO @ Tue, 30 Jun 2020 05:32:04: 13000000 INFO @ Tue, 30 Jun 2020 05:32:07: 20000000 INFO @ Tue, 30 Jun 2020 05:32:10: 25000000 INFO @ Tue, 30 Jun 2020 05:32:13: 14000000 INFO @ Tue, 30 Jun 2020 05:32:15: 21000000 INFO @ Tue, 30 Jun 2020 05:32:18: 26000000 INFO @ Tue, 30 Jun 2020 05:32:22: 22000000 INFO @ Tue, 30 Jun 2020 05:32:23: 15000000 INFO @ Tue, 30 Jun 2020 05:32:25: 27000000 INFO @ Tue, 30 Jun 2020 05:32:30: 23000000 INFO @ Tue, 30 Jun 2020 05:32:32: 16000000 INFO @ Tue, 30 Jun 2020 05:32:33: 28000000 INFO @ Tue, 30 Jun 2020 05:32:37: 24000000 INFO @ Tue, 30 Jun 2020 05:32:41: 29000000 INFO @ Tue, 30 Jun 2020 05:32:41: 17000000 INFO @ Tue, 30 Jun 2020 05:32:45: 25000000 INFO @ Tue, 30 Jun 2020 05:32:48: 30000000 INFO @ Tue, 30 Jun 2020 05:32:50: 18000000 INFO @ Tue, 30 Jun 2020 05:32:53: 26000000 INFO @ Tue, 30 Jun 2020 05:32:56: 31000000 INFO @ Tue, 30 Jun 2020 05:32:59: 19000000 INFO @ Tue, 30 Jun 2020 05:33:00: 27000000 INFO @ Tue, 30 Jun 2020 05:33:04: 32000000 INFO @ Tue, 30 Jun 2020 05:33:08: 20000000 INFO @ Tue, 30 Jun 2020 05:33:08: 28000000 INFO @ Tue, 30 Jun 2020 05:33:12: 33000000 INFO @ Tue, 30 Jun 2020 05:33:16: 29000000 INFO @ Tue, 30 Jun 2020 05:33:16: 21000000 INFO @ Tue, 30 Jun 2020 05:33:19: 34000000 INFO @ Tue, 30 Jun 2020 05:33:23: 30000000 INFO @ Tue, 30 Jun 2020 05:33:25: 22000000 INFO @ Tue, 30 Jun 2020 05:33:27: 35000000 INFO @ Tue, 30 Jun 2020 05:33:31: 31000000 INFO @ Tue, 30 Jun 2020 05:33:34: 23000000 INFO @ Tue, 30 Jun 2020 05:33:35: 36000000 INFO @ Tue, 30 Jun 2020 05:33:39: 32000000 INFO @ Tue, 30 Jun 2020 05:33:42: 37000000 INFO @ Tue, 30 Jun 2020 05:33:43: 24000000 INFO @ Tue, 30 Jun 2020 05:33:47: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 05:33:50: 38000000 INFO @ Tue, 30 Jun 2020 05:33:52: 25000000 INFO @ Tue, 30 Jun 2020 05:33:55: 34000000 INFO @ Tue, 30 Jun 2020 05:33:58: 39000000 INFO @ Tue, 30 Jun 2020 05:34:02: 26000000 INFO @ Tue, 30 Jun 2020 05:34:02: 35000000 INFO @ Tue, 30 Jun 2020 05:34:05: 40000000 INFO @ Tue, 30 Jun 2020 05:34:10: 36000000 INFO @ Tue, 30 Jun 2020 05:34:11: 27000000 INFO @ Tue, 30 Jun 2020 05:34:13: 41000000 INFO @ Tue, 30 Jun 2020 05:34:18: 37000000 INFO @ Tue, 30 Jun 2020 05:34:20: 28000000 INFO @ Tue, 30 Jun 2020 05:34:20: 42000000 INFO @ Tue, 30 Jun 2020 05:34:21: #1 tag size is determined as 151 bps INFO @ Tue, 30 Jun 2020 05:34:21: #1 tag size = 151 INFO @ Tue, 30 Jun 2020 05:34:21: #1 total tags in treatment: 17765730 INFO @ Tue, 30 Jun 2020 05:34:21: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 05:34:21: #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 05:34:22: #1 tags after filtering in treatment: 16641881 INFO @ Tue, 30 Jun 2020 05:34:22: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 30 Jun 2020 05:34:22: #1 finished! INFO @ Tue, 30 Jun 2020 05:34:22: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 05:34:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 05:34:23: #2 number of paired peaks: 92 WARNING @ Tue, 30 Jun 2020 05:34:23: Too few paired peaks (92) 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 05:34:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.05_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/SRX6386779/SRX6386779.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 05:34:25: 38000000 INFO @ Tue, 30 Jun 2020 05:34:29: 29000000 INFO @ Tue, 30 Jun 2020 05:34:33: 39000000 INFO @ Tue, 30 Jun 2020 05:34:38: 30000000 INFO @ Tue, 30 Jun 2020 05:34:40: 40000000 INFO @ Tue, 30 Jun 2020 05:34:47: 31000000 INFO @ Tue, 30 Jun 2020 05:34:48: 41000000 INFO @ Tue, 30 Jun 2020 05:34:55: 42000000 INFO @ Tue, 30 Jun 2020 05:34:56: #1 tag size is determined as 151 bps INFO @ Tue, 30 Jun 2020 05:34:56: #1 tag size = 151 INFO @ Tue, 30 Jun 2020 05:34:56: #1 total tags in treatment: 17765730 INFO @ Tue, 30 Jun 2020 05:34:56: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 05:34:56: #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 05:34:57: #1 tags after filtering in treatment: 16641881 INFO @ Tue, 30 Jun 2020 05:34:57: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 30 Jun 2020 05:34:57: #1 finished! INFO @ Tue, 30 Jun 2020 05:34:57: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 05:34:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 05:34:57: 32000000 INFO @ Tue, 30 Jun 2020 05:34:58: #2 number of paired peaks: 92 WARNING @ Tue, 30 Jun 2020 05:34:58: Too few paired peaks (92) 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 05:34:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.10_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/SRX6386779/SRX6386779.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 05:35:06: 33000000 INFO @ Tue, 30 Jun 2020 05:35:15: 34000000 INFO @ Tue, 30 Jun 2020 05:35:24: 35000000 INFO @ Tue, 30 Jun 2020 05:35:33: 36000000 INFO @ Tue, 30 Jun 2020 05:35:41: 37000000 INFO @ Tue, 30 Jun 2020 05:35:50: 38000000 INFO @ Tue, 30 Jun 2020 05:35:58: 39000000 INFO @ Tue, 30 Jun 2020 05:36:06: 40000000 INFO @ Tue, 30 Jun 2020 05:36:14: 41000000 INFO @ Tue, 30 Jun 2020 05:36:23: 42000000 INFO @ Tue, 30 Jun 2020 05:36:24: #1 tag size is determined as 151 bps INFO @ Tue, 30 Jun 2020 05:36:24: #1 tag size = 151 INFO @ Tue, 30 Jun 2020 05:36:24: #1 total tags in treatment: 17765730 INFO @ Tue, 30 Jun 2020 05:36:24: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 05:36:24: #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 05:36:24: #1 tags after filtering in treatment: 16641881 INFO @ Tue, 30 Jun 2020 05:36:24: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 30 Jun 2020 05:36:24: #1 finished! INFO @ Tue, 30 Jun 2020 05:36:24: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 05:36:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 05:36:25: #2 number of paired peaks: 92 WARNING @ Tue, 30 Jun 2020 05:36:25: Too few paired peaks (92) 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 05:36:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.20_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/SRX6386779/SRX6386779.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386779/SRX6386779.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling