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Build branch v0.1 with version v0.1.0 (ed1f695)

Browse Source 
Build pipeline: viash-hub.rnaseq.v0.1-bs99g

Source commit: ed1f6955d0

Source message: Bump version to v0.1.0
This commit is contained in:
CI
2024-10-04 19:26:14 +00:00
parent 50e78b4b9a
commit 69e0b1ebaf
246 changed files with 1350 additions and 1349 deletions
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12
target/executable/rseqc/rseqc_bamstat/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "rseqc_bamstat"
namespace: "rseqc"
version: "v0.1"
version: "v0.1.0"
argument_groups:
- name: "Input"
arguments:
@@ -140,7 +140,7 @@ engines:
id: "docker"
image: "ubuntu:22.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.1"
target_tag: "v0.1.0"
namespace_separator: "/"
setup:
- type: "apt"
@@ -163,10 +163,10 @@ build_info:
output: "target/executable/rseqc/rseqc_bamstat"
executable: "target/executable/rseqc/rseqc_bamstat/rseqc_bamstat"
viash_version: "0.9.0"
git_commit: "fd0354dae813d953b107e8fa856f3cd4e7939f2b"
git_remote: "https://x-access-token:ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
git_commit: "ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
git_remote: "https://x-access-token:ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
package_config:
version: "v0.1"
version: "v0.1.0"
info:
test_resources:
- path: "gs://viash-hub-test-data/rnaseq/v1"
@@ -188,5 +188,5 @@ package_config:
\ := '$id'\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.1'"
- ".engines[.type == 'docker'].target_tag := 'v0.1.0'"
organization: "vsh"

16
target/executable/rseqc/rseqc_bamstat/rseqc_bamstat
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# rseqc_bamstat v0.1
# rseqc_bamstat v0.1.0
#
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "rseqc_bamstat v0.1"
echo "rseqc_bamstat v0.1.0"
echo ""
echo "Generate statistics from a bam file."
echo ""
@@ -477,10 +477,10 @@ RUN pip install --upgrade pip && \
pip install --upgrade --no-cache-dir "RSeQC"
LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_bamstat"
LABEL org.opencontainers.image.created="2024-10-04T10:28:27Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="fd0354dae813d953b107e8fa856f3cd4e7939f2b"
LABEL org.opencontainers.image.version="v0.1"
LABEL org.opencontainers.image.created="2024-10-04T11:21:52Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
LABEL org.opencontainers.image.version="v0.1.0"
VIASHDOCKER
fi
@@ -616,7 +616,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "rseqc_bamstat v0.1"
echo "rseqc_bamstat v0.1.0"
exit
;;
--input)
@@ -740,7 +740,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_bamstat:v0.1'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_bamstat:v0.1.0'
fi
# print dockerfile

12
target/executable/rseqc/rseqc_inferexperiment/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "rseqc_inferexperiment"
namespace: "rseqc"
version: "v0.1"
version: "v0.1.0"
argument_groups:
- name: "Input"
arguments:
@@ -163,7 +163,7 @@ engines:
id: "docker"
image: "ubuntu:22.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.1"
target_tag: "v0.1.0"
namespace_separator: "/"
setup:
- type: "apt"
@@ -186,10 +186,10 @@ build_info:
output: "target/executable/rseqc/rseqc_inferexperiment"
executable: "target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment"
viash_version: "0.9.0"
git_commit: "fd0354dae813d953b107e8fa856f3cd4e7939f2b"
git_remote: "https://x-access-token:ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
git_commit: "ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
git_remote: "https://x-access-token:ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
package_config:
version: "v0.1"
version: "v0.1.0"
info:
test_resources:
- path: "gs://viash-hub-test-data/rnaseq/v1"
@@ -211,5 +211,5 @@ package_config:
\ := '$id'\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.1'"
- ".engines[.type == 'docker'].target_tag := 'v0.1.0'"
organization: "vsh"

16
target/executable/rseqc/rseqc_inferexperiment/rseqc_inferexperiment
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# rseqc_inferexperiment v0.1
# rseqc_inferexperiment v0.1.0
#
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "rseqc_inferexperiment v0.1"
echo "rseqc_inferexperiment v0.1.0"
echo ""
echo "Infer strandedness from sequencing reads"
echo ""
@@ -487,10 +487,10 @@ RUN pip install --upgrade pip && \
pip install --upgrade --no-cache-dir "RSeQC"
LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_inferexperiment"
LABEL org.opencontainers.image.created="2024-10-04T10:28:25Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="fd0354dae813d953b107e8fa856f3cd4e7939f2b"
LABEL org.opencontainers.image.version="v0.1"
LABEL org.opencontainers.image.created="2024-10-04T11:21:50Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
LABEL org.opencontainers.image.version="v0.1.0"
VIASHDOCKER
fi
@@ -626,7 +626,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "rseqc_inferexperiment v0.1"
echo "rseqc_inferexperiment v0.1.0"
exit
;;
--input)
@@ -772,7 +772,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_inferexperiment:v0.1'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_inferexperiment:v0.1.0'
fi
# print dockerfile

12
target/executable/rseqc/rseqc_innerdistance/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "rseqc_innerdistance"
namespace: "rseqc"
version: "v0.1"
version: "v0.1.0"
argument_groups:
- name: "Input"
arguments:
@@ -248,7 +248,7 @@ engines:
id: "docker"
image: "ubuntu:22.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.1"
target_tag: "v0.1.0"
namespace_separator: "/"
setup:
- type: "apt"
@@ -272,10 +272,10 @@ build_info:
output: "target/executable/rseqc/rseqc_innerdistance"
executable: "target/executable/rseqc/rseqc_innerdistance/rseqc_innerdistance"
viash_version: "0.9.0"
git_commit: "fd0354dae813d953b107e8fa856f3cd4e7939f2b"
git_remote: "https://x-access-token:ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
git_commit: "ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
git_remote: "https://x-access-token:ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
package_config:
version: "v0.1"
version: "v0.1.0"
info:
test_resources:
- path: "gs://viash-hub-test-data/rnaseq/v1"
@@ -297,5 +297,5 @@ package_config:
\ := '$id'\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.1'"
- ".engines[.type == 'docker'].target_tag := 'v0.1.0'"
organization: "vsh"

16
target/executable/rseqc/rseqc_innerdistance/rseqc_innerdistance
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# rseqc_innerdistance v0.1
# rseqc_innerdistance v0.1.0
#
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "rseqc_innerdistance v0.1"
echo "rseqc_innerdistance v0.1.0"
echo ""
echo "Calculate inner distance between read pairs."
echo ""
@@ -529,10 +529,10 @@ RUN pip install --upgrade pip && \
pip install --upgrade --no-cache-dir "RSeQC"
LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_innerdistance"
LABEL org.opencontainers.image.created="2024-10-04T10:28:27Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="fd0354dae813d953b107e8fa856f3cd4e7939f2b"
LABEL org.opencontainers.image.version="v0.1"
LABEL org.opencontainers.image.created="2024-10-04T11:21:52Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
LABEL org.opencontainers.image.version="v0.1.0"
VIASHDOCKER
fi
@@ -668,7 +668,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "rseqc_innerdistance v0.1"
echo "rseqc_innerdistance v0.1.0"
exit
;;
--input)
@@ -891,7 +891,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_innerdistance:v0.1'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_innerdistance:v0.1.0'
fi
# print dockerfile

12
target/executable/rseqc/rseqc_junctionannotation/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "rseqc_junctionannotation"
namespace: "rseqc"
version: "v0.1"
version: "v0.1.0"
argument_groups:
- name: "Input"
arguments:
@@ -236,7 +236,7 @@ engines:
id: "docker"
image: "ubuntu:22.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.1"
target_tag: "v0.1.0"
namespace_separator: "/"
setup:
- type: "apt"
@@ -260,10 +260,10 @@ build_info:
output: "target/executable/rseqc/rseqc_junctionannotation"
executable: "target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation"
viash_version: "0.9.0"
git_commit: "fd0354dae813d953b107e8fa856f3cd4e7939f2b"
git_remote: "https://x-access-token:ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
git_commit: "ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
git_remote: "https://x-access-token:ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
package_config:
version: "v0.1"
version: "v0.1.0"
info:
test_resources:
- path: "gs://viash-hub-test-data/rnaseq/v1"
@@ -285,5 +285,5 @@ package_config:
\ := '$id'\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.1'"
- ".engines[.type == 'docker'].target_tag := 'v0.1.0'"
organization: "vsh"

16
target/executable/rseqc/rseqc_junctionannotation/rseqc_junctionannotation
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# rseqc_junctionannotation v0.1
# rseqc_junctionannotation v0.1.0
#
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "rseqc_junctionannotation v0.1"
echo "rseqc_junctionannotation v0.1.0"
echo ""
echo "Compare detected splice junctions to reference gene model."
echo ""
@@ -519,10 +519,10 @@ RUN pip install --upgrade pip && \
pip install --upgrade --no-cache-dir "RSeQC"
LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_junctionannotation"
LABEL org.opencontainers.image.created="2024-10-04T10:28:26Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="fd0354dae813d953b107e8fa856f3cd4e7939f2b"
LABEL org.opencontainers.image.version="v0.1"
LABEL org.opencontainers.image.created="2024-10-04T11:21:51Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
LABEL org.opencontainers.image.version="v0.1.0"
VIASHDOCKER
fi
@@ -658,7 +658,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "rseqc_junctionannotation v0.1"
echo "rseqc_junctionannotation v0.1.0"
exit
;;
--input)
@@ -870,7 +870,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_junctionannotation:v0.1'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_junctionannotation:v0.1.0'
fi
# print dockerfile

12
target/executable/rseqc/rseqc_junctionsaturation/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "rseqc_junctionsaturation"
namespace: "rseqc"
version: "v0.1"
version: "v0.1.0"
argument_groups:
- name: "Input"
arguments:
@@ -225,7 +225,7 @@ engines:
id: "docker"
image: "ubuntu:22.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.1"
target_tag: "v0.1.0"
namespace_separator: "/"
setup:
- type: "apt"
@@ -249,10 +249,10 @@ build_info:
output: "target/executable/rseqc/rseqc_junctionsaturation"
executable: "target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation"
viash_version: "0.9.0"
git_commit: "fd0354dae813d953b107e8fa856f3cd4e7939f2b"
git_remote: "https://x-access-token:ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
git_commit: "ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
git_remote: "https://x-access-token:ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
package_config:
version: "v0.1"
version: "v0.1.0"
info:
test_resources:
- path: "gs://viash-hub-test-data/rnaseq/v1"
@@ -274,5 +274,5 @@ package_config:
\ := '$id'\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.1'"
- ".engines[.type == 'docker'].target_tag := 'v0.1.0'"
organization: "vsh"

16
target/executable/rseqc/rseqc_junctionsaturation/rseqc_junctionsaturation
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# rseqc_junctionsaturation v0.1
# rseqc_junctionsaturation v0.1.0
#
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "rseqc_junctionsaturation v0.1"
echo "rseqc_junctionsaturation v0.1.0"
echo ""
echo "Compare detected splice junctions to reference gene model."
echo ""
@@ -522,10 +522,10 @@ RUN pip install --upgrade pip && \
pip install --upgrade --no-cache-dir "RSeQC"
LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_junctionsaturation"
LABEL org.opencontainers.image.created="2024-10-04T10:28:26Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="fd0354dae813d953b107e8fa856f3cd4e7939f2b"
LABEL org.opencontainers.image.version="v0.1"
LABEL org.opencontainers.image.created="2024-10-04T11:21:51Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
LABEL org.opencontainers.image.version="v0.1.0"
VIASHDOCKER
fi
@@ -661,7 +661,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "rseqc_junctionsaturation v0.1"
echo "rseqc_junctionsaturation v0.1.0"
exit
;;
--input)
@@ -862,7 +862,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_junctionsaturation:v0.1'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_junctionsaturation:v0.1.0'
fi
# print dockerfile

12
target/executable/rseqc/rseqc_readdistribution/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "rseqc_readdistribution"
namespace: "rseqc"
version: "v0.1"
version: "v0.1.0"
argument_groups:
- name: "Input"
arguments:
@@ -139,7 +139,7 @@ engines:
id: "docker"
image: "ubuntu:22.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.1"
target_tag: "v0.1.0"
namespace_separator: "/"
setup:
- type: "apt"
@@ -162,10 +162,10 @@ build_info:
output: "target/executable/rseqc/rseqc_readdistribution"
executable: "target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution"
viash_version: "0.9.0"
git_commit: "fd0354dae813d953b107e8fa856f3cd4e7939f2b"
git_remote: "https://x-access-token:ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
git_commit: "ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
git_remote: "https://x-access-token:ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
package_config:
version: "v0.1"
version: "v0.1.0"
info:
test_resources:
- path: "gs://viash-hub-test-data/rnaseq/v1"
@@ -187,5 +187,5 @@ package_config:
\ := '$id'\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.1'"
- ".engines[.type == 'docker'].target_tag := 'v0.1.0'"
organization: "vsh"

16
target/executable/rseqc/rseqc_readdistribution/rseqc_readdistribution
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# rseqc_readdistribution v0.1
# rseqc_readdistribution v0.1.0
#
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "rseqc_readdistribution v0.1"
echo "rseqc_readdistribution v0.1.0"
echo ""
echo "Calculate how mapped reads are distributed over genomic features."
echo ""
@@ -474,10 +474,10 @@ RUN pip install --upgrade pip && \
pip install --upgrade --no-cache-dir "RSeQC"
LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_readdistribution"
LABEL org.opencontainers.image.created="2024-10-04T10:28:27Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="fd0354dae813d953b107e8fa856f3cd4e7939f2b"
LABEL org.opencontainers.image.version="v0.1"
LABEL org.opencontainers.image.created="2024-10-04T11:21:52Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
LABEL org.opencontainers.image.version="v0.1.0"
VIASHDOCKER
fi
@@ -613,7 +613,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "rseqc_readdistribution v0.1"
echo "rseqc_readdistribution v0.1.0"
exit
;;
--input)
@@ -737,7 +737,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_readdistribution:v0.1'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_readdistribution:v0.1.0'
fi
# print dockerfile

12
target/executable/rseqc/rseqc_readduplication/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "rseqc_readduplication"
namespace: "rseqc"
version: "v0.1"
version: "v0.1.0"
argument_groups:
- name: "Input"
arguments:
@@ -187,7 +187,7 @@ engines:
id: "docker"
image: "ubuntu:22.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.1"
target_tag: "v0.1.0"
namespace_separator: "/"
setup:
- type: "apt"
@@ -211,10 +211,10 @@ build_info:
output: "target/executable/rseqc/rseqc_readduplication"
executable: "target/executable/rseqc/rseqc_readduplication/rseqc_readduplication"
viash_version: "0.9.0"
git_commit: "fd0354dae813d953b107e8fa856f3cd4e7939f2b"
git_remote: "https://x-access-token:ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
git_commit: "ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
git_remote: "https://x-access-token:ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
package_config:
version: "v0.1"
version: "v0.1.0"
info:
test_resources:
- path: "gs://viash-hub-test-data/rnaseq/v1"
@@ -236,5 +236,5 @@ package_config:
\ := '$id'\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.1'"
- ".engines[.type == 'docker'].target_tag := 'v0.1.0'"
organization: "vsh"

16
target/executable/rseqc/rseqc_readduplication/rseqc_readduplication
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# rseqc_readduplication v0.1
# rseqc_readduplication v0.1.0
#
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "rseqc_readduplication v0.1"
echo "rseqc_readduplication v0.1.0"
echo ""
echo "Calculate read duplication rate."
echo ""
@@ -499,10 +499,10 @@ RUN pip install --upgrade pip && \
pip install --upgrade --no-cache-dir "RSeQC"
LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_readduplication"
LABEL org.opencontainers.image.created="2024-10-04T10:28:25Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="fd0354dae813d953b107e8fa856f3cd4e7939f2b"
LABEL org.opencontainers.image.version="v0.1"
LABEL org.opencontainers.image.created="2024-10-04T11:21:50Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
LABEL org.opencontainers.image.version="v0.1.0"
VIASHDOCKER
fi
@@ -638,7 +638,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "rseqc_readduplication v0.1"
echo "rseqc_readduplication v0.1.0"
exit
;;
--input)
@@ -806,7 +806,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_readduplication:v0.1'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_readduplication:v0.1.0'
fi
# print dockerfile

12
target/executable/rseqc/rseqc_tin/.config.vsh.yaml
View File

@@ -1,6 +1,6 @@
name: "rseqc_tin"
namespace: "rseqc"
version: "v0.1"
version: "v0.1.0"
argument_groups:
- name: "Input"
arguments:
@@ -193,7 +193,7 @@ engines:
id: "docker"
image: "ubuntu:22.04"
target_registry: "images.viash-hub.com"
target_tag: "v0.1"
target_tag: "v0.1.0"
namespace_separator: "/"
setup:
- type: "apt"
@@ -214,10 +214,10 @@ build_info:
output: "target/executable/rseqc/rseqc_tin"
executable: "target/executable/rseqc/rseqc_tin/rseqc_tin"
viash_version: "0.9.0"
git_commit: "fd0354dae813d953b107e8fa856f3cd4e7939f2b"
git_remote: "https://x-access-token:ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
git_commit: "ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
git_remote: "https://x-access-token:ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
package_config:
version: "v0.1"
version: "v0.1.0"
info:
test_resources:
- path: "gs://viash-hub-test-data/rnaseq/v1"
@@ -239,5 +239,5 @@ package_config:
\ := '$id'\n"
- ".engines += { type: \"native\" }"
- ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
- ".engines[.type == 'docker'].target_tag := 'v0.1'"
- ".engines[.type == 'docker'].target_tag := 'v0.1.0'"
organization: "vsh"

16
target/executable/rseqc/rseqc_tin/rseqc_tin
View File

@@ -1,6 +1,6 @@
#!/usr/bin/env bash
# rseqc_tin v0.1
# rseqc_tin v0.1.0
#
# This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
# work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -171,7 +171,7 @@ VIASH_META_TEMP_DIR="$VIASH_TEMP"
# ViashHelp: Display helpful explanation about this executable
function ViashHelp {
echo "rseqc_tin v0.1"
echo "rseqc_tin v0.1.0"
echo ""
echo "Calculte TIN (transcript integrity number) from RNA-seq reads"
echo ""
@@ -501,10 +501,10 @@ RUN apt-get update && \
RUN pip3 install RSeQC
LABEL org.opencontainers.image.description="Companion container for running component rseqc rseqc_tin"
LABEL org.opencontainers.image.created="2024-10-04T10:28:26Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_uEvoQGzqSMA9DB5p54qDCLqLtMHR6W1wWY8K@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="fd0354dae813d953b107e8fa856f3cd4e7939f2b"
LABEL org.opencontainers.image.version="v0.1"
LABEL org.opencontainers.image.created="2024-10-04T11:21:50Z"
LABEL org.opencontainers.image.source="https://x-access-token/ghs_tXtyBoqiv8A2hCsnUFe4lEgzrzh9764dBmxo@github.com/viash-hub/rnaseq"
LABEL org.opencontainers.image.revision="ed1f6955d07b7dc1f4a606fc35a1176f7d70a6fa"
LABEL org.opencontainers.image.version="v0.1.0"
VIASHDOCKER
fi
@@ -640,7 +640,7 @@ while [[ $# -gt 0 ]]; do
shift 1
;;
--version)
echo "rseqc_tin v0.1"
echo "rseqc_tin v0.1.0"
exit
;;
--bam_input)
@@ -813,7 +813,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then
# determine docker image id
if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_tin:v0.1'
VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/rseqc/rseqc_tin:v0.1.0'
fi
# print dockerfile