Job ID = 6528375 SRX = SRX5431058 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T15:06:24 prefetch.2.10.7: 1) Downloading 'SRR8632357'... 2020-06-29T15:06:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:14:29 prefetch.2.10.7: HTTPS download failed 2020-06-29T15:14:29 prefetch.2.10.7: 1) failed to download SRR8632357 2020-06-29T15:14:42 prefetch.2.10.7: 1) Downloading 'SRR8632357'... 2020-06-29T15:14:42 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:14:42 prefetch.2.10.7: Continue download of 'SRR8632357' from 1635907215 2020-06-29T15:14:51 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:14:51 prefetch.2.10.7: 1) 'SRR8632357' was downloaded successfully Read 29475093 spots for SRR8632357/SRR8632357.sra Written 29475093 spots for SRR8632357/SRR8632357.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: 01:01:05 29475093 reads; of these: 29475093 (100.00%) were paired; of these: 3724804 (12.64%) aligned concordantly 0 times 17720077 (60.12%) aligned concordantly exactly 1 time 8030212 (27.24%) aligned concordantly >1 times ---- 3724804 pairs aligned concordantly 0 times; of these: 485151 (13.02%) aligned discordantly 1 time ---- 3239653 pairs aligned 0 times concordantly or discordantly; of these: 6479306 mates make up the pairs; of these: 5299444 (81.79%) aligned 0 times 654589 (10.10%) aligned exactly 1 time 525273 (8.11%) aligned >1 times 91.01% overall alignment rate Time searching: 01:01:05 Overall time: 01:01:05 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 24 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] 2357773 / 26144848 = 0.0902 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 01:47:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.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 01:47:36: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:47:36: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:47:42: 1000000 INFO @ Tue, 30 Jun 2020 01:47:48: 2000000 INFO @ Tue, 30 Jun 2020 01:47:54: 3000000 INFO @ Tue, 30 Jun 2020 01:48:00: 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 01:48:06: 5000000 INFO @ Tue, 30 Jun 2020 01:48:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.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 01:48:06: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:48:06: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:48:12: 6000000 INFO @ Tue, 30 Jun 2020 01:48:13: 1000000 INFO @ Tue, 30 Jun 2020 01:48:19: 7000000 INFO @ Tue, 30 Jun 2020 01:48:19: 2000000 INFO @ Tue, 30 Jun 2020 01:48:25: 8000000 INFO @ Tue, 30 Jun 2020 01:48:26: 3000000 INFO @ Tue, 30 Jun 2020 01:48:32: 9000000 INFO @ Tue, 30 Jun 2020 01:48:32: 4000000 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 01:48:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.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 01:48:37: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:48:37: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:48:39: 5000000 INFO @ Tue, 30 Jun 2020 01:48:39: 10000000 INFO @ Tue, 30 Jun 2020 01:48:43: 1000000 INFO @ Tue, 30 Jun 2020 01:48:45: 6000000 INFO @ Tue, 30 Jun 2020 01:48:46: 11000000 INFO @ Tue, 30 Jun 2020 01:48:50: 2000000 INFO @ Tue, 30 Jun 2020 01:48:52: 7000000 INFO @ Tue, 30 Jun 2020 01:48:53: 12000000 INFO @ Tue, 30 Jun 2020 01:48:56: 3000000 INFO @ Tue, 30 Jun 2020 01:48:58: 8000000 INFO @ Tue, 30 Jun 2020 01:49:00: 13000000 INFO @ Tue, 30 Jun 2020 01:49:03: 4000000 INFO @ Tue, 30 Jun 2020 01:49:05: 9000000 INFO @ Tue, 30 Jun 2020 01:49:06: 14000000 INFO @ Tue, 30 Jun 2020 01:49:09: 5000000 INFO @ Tue, 30 Jun 2020 01:49:11: 10000000 INFO @ Tue, 30 Jun 2020 01:49:13: 15000000 INFO @ Tue, 30 Jun 2020 01:49:16: 6000000 INFO @ Tue, 30 Jun 2020 01:49:18: 11000000 INFO @ Tue, 30 Jun 2020 01:49:19: 16000000 INFO @ Tue, 30 Jun 2020 01:49:23: 7000000 INFO @ Tue, 30 Jun 2020 01:49:25: 12000000 INFO @ Tue, 30 Jun 2020 01:49:26: 17000000 INFO @ Tue, 30 Jun 2020 01:49:29: 8000000 INFO @ Tue, 30 Jun 2020 01:49:31: 13000000 INFO @ Tue, 30 Jun 2020 01:49:33: 18000000 INFO @ Tue, 30 Jun 2020 01:49:36: 9000000 INFO @ Tue, 30 Jun 2020 01:49:38: 14000000 INFO @ Tue, 30 Jun 2020 01:49:40: 19000000 INFO @ Tue, 30 Jun 2020 01:49:42: 10000000 INFO @ Tue, 30 Jun 2020 01:49:44: 15000000 INFO @ Tue, 30 Jun 2020 01:49:47: 20000000 INFO @ Tue, 30 Jun 2020 01:49:50: 11000000 INFO @ Tue, 30 Jun 2020 01:49:51: 16000000 INFO @ Tue, 30 Jun 2020 01:49:54: 21000000 INFO @ Tue, 30 Jun 2020 01:49:57: 12000000 INFO @ Tue, 30 Jun 2020 01:49:57: 17000000 INFO @ Tue, 30 Jun 2020 01:50:00: 22000000 INFO @ Tue, 30 Jun 2020 01:50:04: 13000000 INFO @ Tue, 30 Jun 2020 01:50:04: 18000000 INFO @ Tue, 30 Jun 2020 01:50:07: 23000000 INFO @ Tue, 30 Jun 2020 01:50:11: 19000000 INFO @ Tue, 30 Jun 2020 01:50:11: 14000000 INFO @ Tue, 30 Jun 2020 01:50:14: 24000000 INFO @ Tue, 30 Jun 2020 01:50:17: 20000000 INFO @ Tue, 30 Jun 2020 01:50:18: 15000000 INFO @ Tue, 30 Jun 2020 01:50:21: 25000000 INFO @ Tue, 30 Jun 2020 01:50:24: 21000000 INFO @ Tue, 30 Jun 2020 01:50:25: 16000000 INFO @ Tue, 30 Jun 2020 01:50:28: 26000000 INFO @ Tue, 30 Jun 2020 01:50:31: 22000000 INFO @ Tue, 30 Jun 2020 01:50:31: 17000000 INFO @ Tue, 30 Jun 2020 01:50:34: 27000000 INFO @ Tue, 30 Jun 2020 01:50:37: 23000000 INFO @ Tue, 30 Jun 2020 01:50:38: 18000000 INFO @ Tue, 30 Jun 2020 01:50:41: 28000000 INFO @ Tue, 30 Jun 2020 01:50:44: 24000000 INFO @ Tue, 30 Jun 2020 01:50:45: 19000000 INFO @ Tue, 30 Jun 2020 01:50:47: 29000000 INFO @ Tue, 30 Jun 2020 01:50:51: 25000000 INFO @ Tue, 30 Jun 2020 01:50:51: 20000000 INFO @ Tue, 30 Jun 2020 01:50:54: 30000000 INFO @ Tue, 30 Jun 2020 01:50:58: 26000000 INFO @ Tue, 30 Jun 2020 01:50:58: 21000000 INFO @ Tue, 30 Jun 2020 01:51:00: 31000000 INFO @ Tue, 30 Jun 2020 01:51:04: 27000000 INFO @ Tue, 30 Jun 2020 01:51:05: 22000000 INFO @ Tue, 30 Jun 2020 01:51:06: 32000000 INFO @ Tue, 30 Jun 2020 01:51:11: 28000000 INFO @ Tue, 30 Jun 2020 01:51:12: 23000000 INFO @ Tue, 30 Jun 2020 01:51:13: 33000000 INFO @ Tue, 30 Jun 2020 01:51:17: 29000000 INFO @ Tue, 30 Jun 2020 01:51:19: 24000000 INFO @ Tue, 30 Jun 2020 01:51:19: 34000000 INFO @ Tue, 30 Jun 2020 01:51:24: 30000000 INFO @ Tue, 30 Jun 2020 01:51:25: 25000000 INFO @ Tue, 30 Jun 2020 01:51:26: 35000000 INFO @ Tue, 30 Jun 2020 01:51:30: 31000000 INFO @ Tue, 30 Jun 2020 01:51:32: 26000000 INFO @ Tue, 30 Jun 2020 01:51:32: 36000000 INFO @ Tue, 30 Jun 2020 01:51:37: 32000000 INFO @ Tue, 30 Jun 2020 01:51:38: 27000000 INFO @ Tue, 30 Jun 2020 01:51:39: 37000000 INFO @ Tue, 30 Jun 2020 01:51:43: 33000000 INFO @ Tue, 30 Jun 2020 01:51:45: 28000000 INFO @ Tue, 30 Jun 2020 01:51:45: 38000000 INFO @ Tue, 30 Jun 2020 01:51:50: 34000000 INFO @ Tue, 30 Jun 2020 01:51:51: 29000000 INFO @ Tue, 30 Jun 2020 01:51:51: 39000000 INFO @ Tue, 30 Jun 2020 01:51:56: 35000000 INFO @ Tue, 30 Jun 2020 01:51:58: 30000000 INFO @ Tue, 30 Jun 2020 01:51:58: 40000000 INFO @ Tue, 30 Jun 2020 01:52:03: 36000000 INFO @ Tue, 30 Jun 2020 01:52:04: 41000000 INFO @ Tue, 30 Jun 2020 01:52:04: 31000000 INFO @ Tue, 30 Jun 2020 01:52:09: 37000000 INFO @ Tue, 30 Jun 2020 01:52:10: 42000000 INFO @ Tue, 30 Jun 2020 01:52:10: 32000000 INFO @ Tue, 30 Jun 2020 01:52:16: 38000000 INFO @ Tue, 30 Jun 2020 01:52:16: 43000000 INFO @ Tue, 30 Jun 2020 01:52:17: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:52:22: 39000000 INFO @ Tue, 30 Jun 2020 01:52:23: 44000000 INFO @ Tue, 30 Jun 2020 01:52:23: 34000000 INFO @ Tue, 30 Jun 2020 01:52:29: 40000000 INFO @ Tue, 30 Jun 2020 01:52:29: 45000000 INFO @ Tue, 30 Jun 2020 01:52:30: 35000000 INFO @ Tue, 30 Jun 2020 01:52:35: 41000000 INFO @ Tue, 30 Jun 2020 01:52:36: 46000000 INFO @ Tue, 30 Jun 2020 01:52:36: 36000000 INFO @ Tue, 30 Jun 2020 01:52:42: 42000000 INFO @ Tue, 30 Jun 2020 01:52:42: 47000000 INFO @ Tue, 30 Jun 2020 01:52:43: 37000000 INFO @ Tue, 30 Jun 2020 01:52:48: 43000000 INFO @ Tue, 30 Jun 2020 01:52:48: 48000000 INFO @ Tue, 30 Jun 2020 01:52:50: 38000000 INFO @ Tue, 30 Jun 2020 01:52:55: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:52:55: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:52:55: #1 total tags in treatment: 23409442 INFO @ Tue, 30 Jun 2020 01:52:55: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:52:55: #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 01:52:55: 44000000 INFO @ Tue, 30 Jun 2020 01:52:55: #1 tags after filtering in treatment: 19412840 INFO @ Tue, 30 Jun 2020 01:52:55: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 30 Jun 2020 01:52:55: #1 finished! INFO @ Tue, 30 Jun 2020 01:52:55: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:52:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:52:56: 39000000 INFO @ Tue, 30 Jun 2020 01:52:57: #2 number of paired peaks: 7 WARNING @ Tue, 30 Jun 2020 01:52:57: Too few paired peaks (7) 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 01:52:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.05_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/dm3/SRX5431058/SRX5431058.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:53:02: 45000000 INFO @ Tue, 30 Jun 2020 01:53:03: 40000000 INFO @ Tue, 30 Jun 2020 01:53:08: 46000000 INFO @ Tue, 30 Jun 2020 01:53:09: 41000000 INFO @ Tue, 30 Jun 2020 01:53:15: 47000000 INFO @ Tue, 30 Jun 2020 01:53:15: 42000000 INFO @ Tue, 30 Jun 2020 01:53:21: 48000000 INFO @ Tue, 30 Jun 2020 01:53:22: 43000000 INFO @ Tue, 30 Jun 2020 01:53:27: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:53:27: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:53:27: #1 total tags in treatment: 23409442 INFO @ Tue, 30 Jun 2020 01:53:27: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:53:27: #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 01:53:28: #1 tags after filtering in treatment: 19412840 INFO @ Tue, 30 Jun 2020 01:53:28: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 30 Jun 2020 01:53:28: #1 finished! INFO @ Tue, 30 Jun 2020 01:53:28: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:53:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:53:29: 44000000 INFO @ Tue, 30 Jun 2020 01:53:29: #2 number of paired peaks: 7 WARNING @ Tue, 30 Jun 2020 01:53:29: Too few paired peaks (7) 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 01:53:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.10_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/dm3/SRX5431058/SRX5431058.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:53:35: 45000000 INFO @ Tue, 30 Jun 2020 01:53:41: 46000000 INFO @ Tue, 30 Jun 2020 01:53:47: 47000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:53:53: 48000000 INFO @ Tue, 30 Jun 2020 01:53:59: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:53:59: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:53:59: #1 total tags in treatment: 23409442 INFO @ Tue, 30 Jun 2020 01:53:59: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:53:59: #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 01:53:59: #1 tags after filtering in treatment: 19412840 INFO @ Tue, 30 Jun 2020 01:53:59: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 30 Jun 2020 01:53:59: #1 finished! INFO @ Tue, 30 Jun 2020 01:53:59: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:53:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:54:01: #2 number of paired peaks: 7 WARNING @ Tue, 30 Jun 2020 01:54:01: Too few paired peaks (7) 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 01:54:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.20_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/SRX5431058/SRX5431058.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431058/SRX5431058.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling