cwl doesn't like duplicated objects

[tonyyzy]

RNASeq/cwl-tools/docker/salmon_quant.cwl

Lines 24 to 54 in 0509cc1

	output:
	type: string
	inputBinding:
	position: 2
	prefix: "-o"
	threads:
	type: int
	inputBinding:
	position: 3
	prefix: "-p"
	first_end_fastq:
	type: File?
	inputBinding:
	position: 5
	prefix: "-1"
	second_end_fastq:
	type: File?
	inputBinding:
	position: 6
	prefix: "-2"
	single_fastq:
	type: File[]?
	inputBinding:
	position: 5
	prefix: "-r"
	outputs:
	output:
	type: Directory
	outputBinding:
	glob: $(inputs.output)

cwl doesn't like that output appeared twice.

[FilipeJesus]

• dexseq output change "output" to "dexseq_out"

• edger output change "output" to "edger_out"

• fgsea output change "example_out" to "gsea_out"

• ht_prepare output change "output" to "ht_prep_out"

• hypergeo output change "DESeq2_out" to "hypergeo_out"

• miso_index output change "output" to "miso_out"

• miso_run output change "output" to "miso_out"

• salmon_index output change "output" to "salmon_out"

• salmon_run output change "output" to "salmon_out"

[FilipeJesus]

https://github.com/tonyyzy/RNASeq/commit/45f26d87e476e8f67e6111468d04e55c2c54557a