v7.10.0 release: Pointing to the singularity folder improved, new option...

v7.10.0 release: Pointing to the singularity folder improved, new option slurm_local added better worflow report

README.md

@@ -146,7 +146,7 @@ Then run:
 
 ```bash
 # distant main.nf file
-HOME="$ZEUSHOME/14985_loot/" ; nextflow run --modules ${MODULES} -hub pasteur gmillot/14985_loot -r v7.8.0 -c $HOME/nextflow.config ; HOME="/pasteur/appa/homes/gmillot/"
+HOME="$ZEUSHOME/14985_loot/" ; nextflow run --modules ${MODULES} -hub pasteur gmillot/14985_loot -r v7.9.0 -c $HOME/nextflow.config ; HOME="/pasteur/appa/homes/gmillot/"
 
 # local main.nf file ($HOME changed to allow the creation of .nextflow into /$ZEUSHOME/14985_loot/. See NFX_HOME in the nextflow soft script)
 HOME="$ZEUSHOME/14985_loot/" ; nextflow run --modules ${MODULES} main.nf ; HOME="/pasteur/appa/homes/gmillot/"
@@ -209,6 +209,11 @@ Gitlab developers
 
 ## WHAT'S NEW IN
 
+### v7.10.0
+
+1) Pointing to the singularity folder improved, new option "slurm_local" added better worflow report
+
+
 ### v7.9.0
 
 1) Pipeline improved

example_of_result/20220120_res_CL14985_B4985_4_1645559065/reports/nf_trace.txt

-task_id	hash	native_id	name	status	exit	submit	duration	realtime	%cpu	peak_rss	peak_vmem	rchar	wchar
-2	e7/424ee9	183	Nremove (1)	CACHED	0	2022-02-22 15:19:14.426	4.8s	1.7s	46.8%	12 MB	70.6 MB	16.8 MB	14.5 MB
-4	5c/9949b3	1152	trim (1)	CACHED	0	2022-02-22 15:19:19.373	12.3s	9.1s	42.9%	62.8 MB	5.6 GB	16.4 MB	12 MB
-7	1c/07097b	2902	kraken (1)	CACHED	0	2022-02-22 15:19:31.771	385ms	36ms	72.1%	0	0	150.8 KB	216 B
-6	71/e822e1	1618	fivep_filtering (1)	CACHED	0	2022-02-22 20:10:48.915	3s	1.6s	26.0%	9.6 MB	61.4 MB	28 MB	15.3 MB
-5	01/01ac2e	2923	fastqc1 (1)	CACHED	0	2022-02-22 15:19:31.867	20.3s	17.6s	76.6%	196.5 MB	3.1 GB	13.9 MB	1.2 MB
-8	74/0a40f9	2495	cutoff (1)	CACHED	0	2022-02-22 20:10:52.062	1.7s	632ms	19.5%	9.6 MB	61.3 MB	7 MB	3.9 MB
-10	d0/cf0991	8593	plot_fivep_filtering_stat (1)	CACHED	0	2022-02-22 15:21:47.464	16.9s	15s	63.1%	203.2 MB	2.4 GB	19.1 MB	816.6 KB
-9	7a/397d42	4382	fastqc2 (1)	CACHED	0	2022-02-22 20:27:19.170	6.3s	5s	61.3%	150.4 MB	3.1 GB	12.3 MB	1.2 MB
-11	91/8872f7	10025	bowtie2 (1)	CACHED	0	2022-02-22 20:40:59.028	4.2s	3.3s	58.6%	111.6 MB	239.5 MB	35 MB	16.2 MB
-12	9d/ad802f	271	motif	CACHED	0	2022-02-22 15:19:14.758	57.3s	54.4s	45.6%	235.2 MB	2.4 GB	48.3 MB	39.7 MB
-13	e7/0f8ca5	8799	plot_read_length (1)	CACHED	0	2022-02-22 20:40:42.125	16.9s	15.6s	67.1%	307.6 MB	2.5 GB	19.7 MB	717.5 KB
-17	70/4547a0	10486	Q20 (1)	CACHED	0	2022-02-22 20:41:03.310	1.6s	375ms	17.2%	5.8 MB	42.8 MB	3.2 MB	2.2 MB
-16	75/97cb47	10460	coverage (1)	CACHED	0	2022-02-22 20:41:03.292	2s	809ms	15.7%	5.1 MB	44.6 MB	479.7 KB	91 KB
-18	94/21967c	10518	multiQC	CACHED	0	2022-02-22 20:41:03.330	8.5s	8s	40.2%	70.9 MB	81.4 MB	28.3 MB	2.3 MB
-21	9b/c9d978	10927	no_soft_clipping (1)	CACHED	0	2022-02-22 20:41:04.907	1.5s	301ms	15.5%	3.4 MB	38.4 MB	2.1 MB	1.5 MB
-22	78/6a3590	11762	plot_coverage (1)	CACHED	0	2022-02-22 20:41:07.165	15.5s	14.7s	62.2%	203.7 MB	2.4 GB	19.1 MB	464.3 KB
-19	10/b42e02	11096	coverage (2)	CACHED	0	2022-02-22 20:41:05.307	1.8s	741ms	16.5%	5 MB	44.6 MB	335 KB	82.4 KB
-20	47/ef2076	10991	duplicate_removal (1)	CACHED	0	2022-02-22 20:41:04.940	2.9s	1.8s	25.5%	7.4 MB	53 MB	12.8 MB	6.6 MB
-23	1a/4b7041	12101	insertion (1)	CACHED	0	2022-02-22 20:41:08.884	1.4s	482ms	19.7%	9.1 MB	65.6 MB	2.5 MB	1.7 MB
-25	2b/d2a26d	13051	plot_coverage (2)	CACHED	0	2022-02-22 20:41:22.625	14.8s	14.1s	64.5%	206.5 MB	2.4 GB	19.1 MB	455.9 KB
-24	5e/1ca0b8	13773	coverage (3)	CACHED	0	2022-02-22 20:41:37.445	1.5s	578ms	19.7%	5.1 MB	44.6 MB	310.2 KB	82.1 KB
-27	f6/edb675	13925	seq_around_insertion (1)	CACHED	0	2022-02-22 20:41:38.925	6.3s	5.6s	72.5%	156.5 MB	2.3 GB	17.9 MB	229.4 KB
-26	9e/6e5dd6	14430	final_insertion_files (1)	CACHED	0	2022-02-22 20:41:45.265	6.5s	5.8s	72.1%	173.5 MB	2.3 GB	18 MB	266 KB
-28	55/2b9806	14883	plot_coverage (3)	CACHED	0	2022-02-22 20:41:51.764	15s	14.3s	63.9%	206.4 MB	2.4 GB	19.1 MB	459.1 KB
-29	ef/0f9c22	15606	extract_seq (1)	CACHED	0	2022-02-22 20:42:06.756	1.7s	840ms	19.6%	5.8 MB	50.2 MB	9.1 MB	4.5 MB
-34	93/91ac2a	15899	base_freq (1)	CACHED	0	2022-02-22 20:42:08.578	1.7s	91ms	13.5%	0	0	279.6 KB	16.8 KB
-33	9e/88bce3	15833	base_freq (4)	CACHED	0	2022-02-22 20:42:08.530	1.7s	102ms	11.5%	0	0	281.8 KB	19 KB
-32	dd/d59b9f	15868	base_freq (3)	CACHED	0	2022-02-22 20:42:08.560	1.4s	103ms	12.1%	0	0	282.4 KB	19.7 KB
-31	82/5592cb	15942	base_freq (2)	CACHED	0	2022-02-22 20:42:08.599	1.5s	97ms	11.6%	0	0	281.6 KB	18.9 KB
-30	ef/14c394	15793	random_insertion (1)	CACHED	0	2022-02-22 20:42:08.476	13.1s	12.1s	61.6%	384.1 MB	2.7 GB	30.7 MB	1.2 MB
-37	cb/7fbfc4	17176	logo (1)	CACHED	0	2022-02-22 20:42:21.604	9.6s	8.8s	61.0%	202.1 MB	2.4 GB	14.6 MB	873.7 KB
-40	53/74fd55	19631	global_logo	CACHED	0	2022-02-22 20:43:00.113	9.7s	9s	63.6%	203.3 MB	2.4 GB	14.6 MB	850.3 KB
-36	f6/b96d60	18408	logo (3)	CACHED	0	2022-02-22 20:42:40.654	9.6s	8.9s	61.1%	204.1 MB	2.4 GB	14.6 MB	882.6 KB
-35	54/42a221	19019	logo (4)	CACHED	0	2022-02-22 20:42:50.233	9.9s	9.2s	59.9%	206.5 MB	2.4 GB	14.6 MB	1002.2 KB
-38	13/c75c72	17797	logo (2)	CACHED	0	2022-02-22 20:42:31.183	9.5s	8.8s	61.4%	229.3 MB	2.4 GB	14.6 MB	852.9 KB
-41	b7/0ba328	20250	plot_insertion (1)	CACHED	0	2022-02-22 20:43:09.794	36.7s	36s	74.6%	998.8 MB	3.2 GB	40.3 MB	9.7 MB
-1	d1/d3302b	21389	init	COMPLETED	0	2022-02-22 20:44:27.767	1.8s	12ms	6.2%	0	0	104.1 KB	669 B
-3	6a/b7ac99	21417	report1	COMPLETED	0	2022-02-22 20:44:27.812	1.9s	18ms	6.0%	0	0	104.5 KB	683 B
-14	3f/736771	21506	backup	COMPLETED	0	2022-02-22 20:44:27.976	1.8s	13ms	6.1%	0	0	104.3 KB	518 B
-39	cb/a45b2e	21670	report2	COMPLETED	0	2022-02-22 20:44:28.329	1.5s	26ms	8.5%	0	0	130.8 KB	1.3 KB
-15	8d/8cfbe1	21537	workflowVersion	COMPLETED	0	2022-02-22 20:44:28.024	2s	637ms	12.5%	4.8 MB	38.4 MB	135 KB	1.7 KB
-42	41/e917b4	22159	print_report (1)	COMPLETED	0	2022-02-22 20:44:30.332	10.5s	9.7s	54.9%	243.9 MB	1 TB	31.2 MB	11.6 MB