Job ID = 5720227 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-04-15T12:36:06 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:36:06 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:36:06 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:36:06 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:39:34 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:41:28 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:45:03 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:50:31 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:53:45 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:53:45 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:53:53 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:58:00 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T13:07:05 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T13:07:05 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T13:23:09 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T13:33:14 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 31,566,895 reads read : 63,133,790 reads written : 63,133,790 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 01:06:57 31566895 reads; of these: 31566895 (100.00%) were paired; of these: 13402487 (42.46%) aligned concordantly 0 times 14047819 (44.50%) aligned concordantly exactly 1 time 4116589 (13.04%) aligned concordantly >1 times ---- 13402487 pairs aligned concordantly 0 times; of these: 7469603 (55.73%) aligned discordantly 1 time ---- 5932884 pairs aligned 0 times concordantly or discordantly; of these: 11865768 mates make up the pairs; of these: 8216287 (69.24%) aligned 0 times 1480794 (12.48%) aligned exactly 1 time 2168687 (18.28%) aligned >1 times 86.99% overall alignment rate Time searching: 01:06:57 Overall time: 01:06:57 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 40 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 chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 3201073 / 25065505 = 0.1277 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 @ Thu, 16 Apr 2020 00:09:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.bam'] # control file = None # effective genome size = 9.00e+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 @ Thu, 16 Apr 2020 00:09:10: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:09:10: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:09:18: 1000000 INFO @ Thu, 16 Apr 2020 00:09:25: 2000000 INFO @ Thu, 16 Apr 2020 00:09:31: 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 @ Thu, 16 Apr 2020 00:09:38: 4000000 INFO @ Thu, 16 Apr 2020 00:09:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.bam'] # control file = None # effective genome size = 9.00e+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 @ Thu, 16 Apr 2020 00:09:40: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:09:40: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:09:46: 5000000 INFO @ Thu, 16 Apr 2020 00:09:48: 1000000 INFO @ Thu, 16 Apr 2020 00:09:53: 6000000 INFO @ Thu, 16 Apr 2020 00:09:55: 2000000 INFO @ Thu, 16 Apr 2020 00:10:01: 7000000 INFO @ Thu, 16 Apr 2020 00:10:03: 3000000 INFO @ Thu, 16 Apr 2020 00:10:08: 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 @ Thu, 16 Apr 2020 00:10:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.bam'] # control file = None # effective genome size = 9.00e+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 @ Thu, 16 Apr 2020 00:10:10: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:10:10: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:10:11: 4000000 INFO @ Thu, 16 Apr 2020 00:10:16: 9000000 INFO @ Thu, 16 Apr 2020 00:10:18: 1000000 INFO @ Thu, 16 Apr 2020 00:10:18: 5000000 INFO @ Thu, 16 Apr 2020 00:10:23: 10000000 INFO @ Thu, 16 Apr 2020 00:10:26: 6000000 INFO @ Thu, 16 Apr 2020 00:10:26: 2000000 INFO @ Thu, 16 Apr 2020 00:10:31: 11000000 INFO @ Thu, 16 Apr 2020 00:10:33: 7000000 INFO @ Thu, 16 Apr 2020 00:10:34: 3000000 INFO @ Thu, 16 Apr 2020 00:10:39: 12000000 INFO @ Thu, 16 Apr 2020 00:10:41: 8000000 INFO @ Thu, 16 Apr 2020 00:10:41: 4000000 INFO @ Thu, 16 Apr 2020 00:10:46: 13000000 INFO @ Thu, 16 Apr 2020 00:10:48: 9000000 INFO @ Thu, 16 Apr 2020 00:10:49: 5000000 INFO @ Thu, 16 Apr 2020 00:10:54: 14000000 INFO @ Thu, 16 Apr 2020 00:10:56: 10000000 INFO @ Thu, 16 Apr 2020 00:10:57: 6000000 INFO @ Thu, 16 Apr 2020 00:11:02: 15000000 INFO @ Thu, 16 Apr 2020 00:11:04: 11000000 INFO @ Thu, 16 Apr 2020 00:11:05: 7000000 INFO @ Thu, 16 Apr 2020 00:11:09: 16000000 INFO @ Thu, 16 Apr 2020 00:11:11: 12000000 INFO @ Thu, 16 Apr 2020 00:11:12: 8000000 INFO @ Thu, 16 Apr 2020 00:11:17: 17000000 INFO @ Thu, 16 Apr 2020 00:11:19: 13000000 INFO @ Thu, 16 Apr 2020 00:11:20: 9000000 INFO @ Thu, 16 Apr 2020 00:11:25: 18000000 INFO @ Thu, 16 Apr 2020 00:11:27: 14000000 INFO @ Thu, 16 Apr 2020 00:11:28: 10000000 INFO @ Thu, 16 Apr 2020 00:11:32: 19000000 INFO @ Thu, 16 Apr 2020 00:11:34: 15000000 INFO @ Thu, 16 Apr 2020 00:11:36: 11000000 INFO @ Thu, 16 Apr 2020 00:11:40: 20000000 INFO @ Thu, 16 Apr 2020 00:11:42: 16000000 INFO @ Thu, 16 Apr 2020 00:11:44: 12000000 INFO @ Thu, 16 Apr 2020 00:11:47: 21000000 INFO @ Thu, 16 Apr 2020 00:11:50: 17000000 INFO @ Thu, 16 Apr 2020 00:11:51: 13000000 INFO @ Thu, 16 Apr 2020 00:11:55: 22000000 INFO @ Thu, 16 Apr 2020 00:11:57: 18000000 INFO @ Thu, 16 Apr 2020 00:11:59: 14000000 INFO @ Thu, 16 Apr 2020 00:12:03: 23000000 INFO @ Thu, 16 Apr 2020 00:12:05: 19000000 INFO @ Thu, 16 Apr 2020 00:12:07: 15000000 INFO @ Thu, 16 Apr 2020 00:12:10: 24000000 INFO @ Thu, 16 Apr 2020 00:12:12: 20000000 INFO @ Thu, 16 Apr 2020 00:12:15: 16000000 INFO @ Thu, 16 Apr 2020 00:12:18: 25000000 INFO @ Thu, 16 Apr 2020 00:12:19: 21000000 INFO @ Thu, 16 Apr 2020 00:12:23: 17000000 INFO @ Thu, 16 Apr 2020 00:12:25: 26000000 INFO @ Thu, 16 Apr 2020 00:12:27: 22000000 INFO @ Thu, 16 Apr 2020 00:12:30: 18000000 INFO @ Thu, 16 Apr 2020 00:12:33: 27000000 INFO @ Thu, 16 Apr 2020 00:12:35: 23000000 INFO @ Thu, 16 Apr 2020 00:12:38: 19000000 INFO @ Thu, 16 Apr 2020 00:12:40: 28000000 INFO @ Thu, 16 Apr 2020 00:12:42: 24000000 INFO @ Thu, 16 Apr 2020 00:12:46: 20000000 INFO @ Thu, 16 Apr 2020 00:12:48: 29000000 INFO @ Thu, 16 Apr 2020 00:12:50: 25000000 INFO @ Thu, 16 Apr 2020 00:12:53: 21000000 INFO @ Thu, 16 Apr 2020 00:12:55: 30000000 INFO @ Thu, 16 Apr 2020 00:12:57: 26000000 INFO @ Thu, 16 Apr 2020 00:13:01: 22000000 INFO @ Thu, 16 Apr 2020 00:13:03: 31000000 INFO @ Thu, 16 Apr 2020 00:13:05: 27000000 INFO @ Thu, 16 Apr 2020 00:13:09: 23000000 INFO @ Thu, 16 Apr 2020 00:13:10: 32000000 INFO @ Thu, 16 Apr 2020 00:13:12: 28000000 INFO @ Thu, 16 Apr 2020 00:13:17: 24000000 INFO @ Thu, 16 Apr 2020 00:13:18: 33000000 INFO @ Thu, 16 Apr 2020 00:13:20: 29000000 INFO @ Thu, 16 Apr 2020 00:13:25: 25000000 INFO @ Thu, 16 Apr 2020 00:13:25: 34000000 INFO @ Thu, 16 Apr 2020 00:13:27: 30000000 INFO @ Thu, 16 Apr 2020 00:13:32: 26000000 INFO @ Thu, 16 Apr 2020 00:13:33: 35000000 INFO @ Thu, 16 Apr 2020 00:13:35: 31000000 INFO @ Thu, 16 Apr 2020 00:13:40: 27000000 INFO @ Thu, 16 Apr 2020 00:13:41: 36000000 INFO @ Thu, 16 Apr 2020 00:13:42: 32000000 INFO @ Thu, 16 Apr 2020 00:13:48: 28000000 INFO @ Thu, 16 Apr 2020 00:13:48: 37000000 INFO @ Thu, 16 Apr 2020 00:13:50: 33000000 INFO @ Thu, 16 Apr 2020 00:13:55: 38000000 INFO @ Thu, 16 Apr 2020 00:13:56: 29000000 INFO @ Thu, 16 Apr 2020 00:13:57: 34000000 INFO @ Thu, 16 Apr 2020 00:14:02: 39000000 INFO @ Thu, 16 Apr 2020 00:14:03: 30000000 INFO @ Thu, 16 Apr 2020 00:14:05: 35000000 INFO @ Thu, 16 Apr 2020 00:14:09: 40000000 INFO @ Thu, 16 Apr 2020 00:14:11: 31000000 INFO @ Thu, 16 Apr 2020 00:14:13: 36000000 INFO @ Thu, 16 Apr 2020 00:14:16: 41000000 INFO @ Thu, 16 Apr 2020 00:14:18: 32000000 INFO @ Thu, 16 Apr 2020 00:14:20: 37000000 INFO @ Thu, 16 Apr 2020 00:14:24: 42000000 INFO @ Thu, 16 Apr 2020 00:14:26: 33000000 INFO @ Thu, 16 Apr 2020 00:14:27: 38000000 INFO @ Thu, 16 Apr 2020 00:14:32: 43000000 INFO @ Thu, 16 Apr 2020 00:14:34: 34000000 INFO @ Thu, 16 Apr 2020 00:14:34: 39000000 INFO @ Thu, 16 Apr 2020 00:14:39: 44000000 INFO @ Thu, 16 Apr 2020 00:14:41: 40000000 INFO @ Thu, 16 Apr 2020 00:14:42: 35000000 INFO @ Thu, 16 Apr 2020 00:14:47: 45000000 INFO @ Thu, 16 Apr 2020 00:14:48: 41000000 INFO @ Thu, 16 Apr 2020 00:14:50: 36000000 INFO @ Thu, 16 Apr 2020 00:14:54: 46000000 INFO @ Thu, 16 Apr 2020 00:14:56: 42000000 INFO @ Thu, 16 Apr 2020 00:14:57: 37000000 INFO @ Thu, 16 Apr 2020 00:15:02: 47000000 INFO @ Thu, 16 Apr 2020 00:15:03: 43000000 INFO @ Thu, 16 Apr 2020 00:15:04: 38000000 INFO @ Thu, 16 Apr 2020 00:15:09: 48000000 INFO @ Thu, 16 Apr 2020 00:15:11: 44000000 INFO @ Thu, 16 Apr 2020 00:15:12: 39000000 INFO @ Thu, 16 Apr 2020 00:15:13: #1 tag size is determined as 150 bps INFO @ Thu, 16 Apr 2020 00:15:13: #1 tag size = 150 INFO @ Thu, 16 Apr 2020 00:15:13: #1 total tags in treatment: 15717718 INFO @ Thu, 16 Apr 2020 00:15:13: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:15:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:15:13: #1 tags after filtering in treatment: 12677175 INFO @ Thu, 16 Apr 2020 00:15:13: #1 Redundant rate of treatment: 0.19 INFO @ Thu, 16 Apr 2020 00:15:13: #1 finished! INFO @ Thu, 16 Apr 2020 00:15:13: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:15:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:15:14: #2 number of paired peaks: 348 WARNING @ Thu, 16 Apr 2020 00:15:14: Fewer paired peaks (348) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 348 pairs to build model! INFO @ Thu, 16 Apr 2020 00:15:14: start model_add_line... INFO @ Thu, 16 Apr 2020 00:15:14: start X-correlation... INFO @ Thu, 16 Apr 2020 00:15:14: end of X-cor INFO @ Thu, 16 Apr 2020 00:15:14: #2 finished! INFO @ Thu, 16 Apr 2020 00:15:14: #2 predicted fragment length is 199 bps INFO @ Thu, 16 Apr 2020 00:15:14: #2 alternative fragment length(s) may be 4,199 bps INFO @ Thu, 16 Apr 2020 00:15:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.05_model.r WARNING @ Thu, 16 Apr 2020 00:15:14: #2 Since the d (199) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 00:15:14: #2 You may need to consider one of the other alternative d(s): 4,199 WARNING @ Thu, 16 Apr 2020 00:15:14: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 00:15:14: #3 Call peaks... INFO @ Thu, 16 Apr 2020 00:15:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 00:15:19: 45000000 INFO @ Thu, 16 Apr 2020 00:15:19: 40000000 INFO @ Thu, 16 Apr 2020 00:15:26: 46000000 INFO @ Thu, 16 Apr 2020 00:15:26: 41000000 INFO @ Thu, 16 Apr 2020 00:15:34: 42000000 INFO @ Thu, 16 Apr 2020 00:15:34: 47000000 INFO @ Thu, 16 Apr 2020 00:15:41: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 00:15:42: 43000000 INFO @ Thu, 16 Apr 2020 00:15:42: 48000000 INFO @ Thu, 16 Apr 2020 00:15:46: #1 tag size is determined as 150 bps INFO @ Thu, 16 Apr 2020 00:15:46: #1 tag size = 150 INFO @ Thu, 16 Apr 2020 00:15:46: #1 total tags in treatment: 15717718 INFO @ Thu, 16 Apr 2020 00:15:46: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:15:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:15:47: #1 tags after filtering in treatment: 12677175 INFO @ Thu, 16 Apr 2020 00:15:47: #1 Redundant rate of treatment: 0.19 INFO @ Thu, 16 Apr 2020 00:15:47: #1 finished! INFO @ Thu, 16 Apr 2020 00:15:47: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:15:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:15:48: #2 number of paired peaks: 348 WARNING @ Thu, 16 Apr 2020 00:15:48: Fewer paired peaks (348) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 348 pairs to build model! INFO @ Thu, 16 Apr 2020 00:15:48: start model_add_line... INFO @ Thu, 16 Apr 2020 00:15:48: start X-correlation... INFO @ Thu, 16 Apr 2020 00:15:48: end of X-cor INFO @ Thu, 16 Apr 2020 00:15:48: #2 finished! INFO @ Thu, 16 Apr 2020 00:15:48: #2 predicted fragment length is 199 bps INFO @ Thu, 16 Apr 2020 00:15:48: #2 alternative fragment length(s) may be 4,199 bps INFO @ Thu, 16 Apr 2020 00:15:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.10_model.r WARNING @ Thu, 16 Apr 2020 00:15:48: #2 Since the d (199) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 00:15:48: #2 You may need to consider one of the other alternative d(s): 4,199 WARNING @ Thu, 16 Apr 2020 00:15:48: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 00:15:48: #3 Call peaks... INFO @ Thu, 16 Apr 2020 00:15:48: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 00:15:50: 44000000 INFO @ Thu, 16 Apr 2020 00:15:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.05_peaks.xls INFO @ Thu, 16 Apr 2020 00:15:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.05_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 00:15:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.05_summits.bed INFO @ Thu, 16 Apr 2020 00:15:53: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (525 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 00:15:58: 45000000 INFO @ Thu, 16 Apr 2020 00:16:05: 46000000 INFO @ Thu, 16 Apr 2020 00:16:13: 47000000 INFO @ Thu, 16 Apr 2020 00:16:16: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 00:16:20: 48000000 INFO @ Thu, 16 Apr 2020 00:16:24: #1 tag size is determined as 150 bps INFO @ Thu, 16 Apr 2020 00:16:24: #1 tag size = 150 INFO @ Thu, 16 Apr 2020 00:16:24: #1 total tags in treatment: 15717718 INFO @ Thu, 16 Apr 2020 00:16:24: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:16:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:16:24: #1 tags after filtering in treatment: 12677175 INFO @ Thu, 16 Apr 2020 00:16:24: #1 Redundant rate of treatment: 0.19 INFO @ Thu, 16 Apr 2020 00:16:24: #1 finished! INFO @ Thu, 16 Apr 2020 00:16:24: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:16:24: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:16:25: #2 number of paired peaks: 348 WARNING @ Thu, 16 Apr 2020 00:16:25: Fewer paired peaks (348) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 348 pairs to build model! INFO @ Thu, 16 Apr 2020 00:16:25: start model_add_line... INFO @ Thu, 16 Apr 2020 00:16:25: start X-correlation... INFO @ Thu, 16 Apr 2020 00:16:25: end of X-cor INFO @ Thu, 16 Apr 2020 00:16:25: #2 finished! INFO @ Thu, 16 Apr 2020 00:16:25: #2 predicted fragment length is 199 bps INFO @ Thu, 16 Apr 2020 00:16:25: #2 alternative fragment length(s) may be 4,199 bps INFO @ Thu, 16 Apr 2020 00:16:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.20_model.r WARNING @ Thu, 16 Apr 2020 00:16:25: #2 Since the d (199) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 00:16:25: #2 You may need to consider one of the other alternative d(s): 4,199 WARNING @ Thu, 16 Apr 2020 00:16:25: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 00:16:25: #3 Call peaks... INFO @ Thu, 16 Apr 2020 00:16:25: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 00:16:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.10_peaks.xls INFO @ Thu, 16 Apr 2020 00:16:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.10_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 00:16:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.10_summits.bed INFO @ Thu, 16 Apr 2020 00:16:30: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (334 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 00:16:52: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 00:17:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.20_peaks.xls INFO @ Thu, 16 Apr 2020 00:17:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.20_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 00:17:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6619599/SRX6619599.20_summits.bed INFO @ Thu, 16 Apr 2020 00:17:04: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (206 records, 4 fields): 1 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。