我已经能够得到(我认为)比以前更远,但蛇形正在抛出一个错误,说Missing input files for rule basecall: /Users/joshl/PycharmProjects/ARS/Results/DataFiles/fast5/FAL03879_67a0761e_1055/ barcode72.fast5。我的代码相关代码在这里: 码 代码语言:javascript 复制 configfile:"config.yaml"FAST5_FILES=glob_wi...
Building DAG of jobs... MissingInputException in line 3 of /mnt/shared/scratch/myan/private/practice_data/RNAseq/snakemake.rnaseq/gtf_list.py: Missing input files for rule all: output.gtf/['ERR188337', 'ERR188245', 'ERR188428', 'ERR188401', 'ERR204916', 'ERR188383', 'ERR188104'...
image.png Building DAG of jobs... MissingInputException in line 3 of /mnt/shared/scratch/myan/private/practice_data/RNAseq/snakemake.rnaseq/gtf_list.py: Missing input files for rule all: output.gtf/['ERR188337', 'ERR188245', 'ERR188428', 'ERR188401', 'ERR204916', 'ERR18838...
第一行SRR后面有一个逗号 最开始没写这个逗号,一直遇到报错 Building DAG of jobs... MissingInputException in line 3 ...
Building DAG of jobs... MissingInputException in line 3 of /mnt/shared/scratch/myan/private/practice_data/RNAseq/snakemake.rnaseq/gtf_list.py: Missing input files for rule all: output.gtf/['ERR188337', 'ERR188245', 'ERR188428', 'ERR188401', 'ERR204916', 'ERR188383', 'ERR188104'...
Snakemake脚本(不写rule all): rule adda: input: "1.txt" output: "1.txt_adda.txt" shell: "cat {input} | xargs echo add a > {output}" rule addb: input: "1.txt_adda.txt" output: "1.txt_adda_addb.txt" shell: "cat {input} | xargs echo add b > {output}" ...
rule fastp_se: input: raw/GSM6001951_L3.fastq.gz output: results/trimmed/GSM6001951_L3.fastq.gz, report/GSM6001951_L3.fastp.html, report/GSM6001951_L3.fastp.json log: logs/fastp/GSM6001951_L3.log jobid: 30 reason: Missing output files: report/GSM6001951_L3.fastp.json, results/trimmed...
rule fastp_se: input: raw/GSM6001951_L3.fastq.gz output: results/trimmed/GSM6001951_L3.fastq.gz, report/GSM6001951_L3.fastp.html, report/GSM6001951_L3.fastp.json log: logs/fastp/GSM6001951_L3.log jobid:30 reason: Missing output files: report/GSM6001951_L3.fastp.json, results/trimmed...
Rule: # Return all files created in the sub-directory /data/test/ rule results: input: directory('data/test/') # Run a command which creates an arbitrary set of files in /data/test/ rule minimal_test: resources: machine_type = 'n1-standard-4', disk_mb = 10000 output: directory('da...
1, rule all定义最终的输出文件, 这里fule cfile输出的是c.log和c.raw, 因此rule all中的input也写为c.log和c.raw 2, rule bfile, 这里的input是a.map和a.ped, output是b.bed,b.bim,b.fam, 这三个文件也要写, 因为是下一个rule的input文件, 建立依赖关系. ...