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Release 0.2.0
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27 files changed

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‎target/docker/convert/maxquant_to_h5ad/maxquant_to_h5ad‎

Lines changed: 9 additions & 9 deletions
Original file line numberDiff line numberDiff line change
@@ -1,7 +1,7 @@
11
#!/usr/bin/env bash
22

33
################################
4-
# maxquant_to_h5ad 0.1.0 #
4+
# maxquant_to_h5ad 0.2.0 #
55
################################
66

77
# This wrapper script is auto-generated by viash 0.5.10.1 and is thus a
@@ -149,7 +149,7 @@ VIASH_META_FUNCTIONALITY_NAME="maxquant_to_h5ad"
149149

150150
# ViashHelp: Display helpful explanation about this executable
151151
function ViashHelp {
152-
echo "maxquant_to_h5ad 0.1.0"
152+
echo "maxquant_to_h5ad 0.2.0"
153153
echo "Converting a MaxQuant output folder to an AnnData file."
154154
echo
155155
echo "Options:"
@@ -510,7 +510,7 @@ while [[ $# -gt 0 ]]; do
510510
shift 1
511511
;;
512512
--version)
513-
echo "maxquant_to_h5ad 0.1.0"
513+
echo "maxquant_to_h5ad 0.2.0"
514514
exit
515515
;;
516516
--input)
@@ -569,13 +569,13 @@ eval set -- $VIASH_POSITIONAL_ARGS
569569

570570
ViashDockerInstallationCheck
571571
if [ $VIASH_MODE == "docker_setup" ]; then
572-
ViashDockerSetup 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0' "$VIASH_DOCKER_SETUP_STRATEGY"
572+
ViashDockerSetup 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0' "$VIASH_DOCKER_SETUP_STRATEGY"
573573
exit 0
574574
fi
575-
ViashDockerSetup 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0' ifneedbepullelsecachedbuild
575+
ViashDockerSetup 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0' ifneedbepullelsecachedbuild
576576
if [ $VIASH_MODE == "docker_debug" ]; then
577-
ViashNotice "+ docker run --entrypoint=bash -i --rm -v "$(pwd)":/pwd --workdir /pwd -t 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0'"
578-
docker run --entrypoint=bash -i --rm -v "$(pwd)":/pwd --workdir /pwd -t 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0'
577+
ViashNotice "+ docker run --entrypoint=bash -i --rm -v "$(pwd)":/pwd --workdir /pwd -t 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0'"
578+
docker run --entrypoint=bash -i --rm -v "$(pwd)":/pwd --workdir /pwd -t 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0'
579579
exit 0
580580
fi
581581

@@ -615,13 +615,13 @@ VIASH_TEMP=$(ViashAutodetectMount "$VIASH_TEMP")
615615
function ViashPerformChown {
616616

617617
if [ ! -z "$VIASH_PAR_OUTPUT" ]; then
618-
eval docker run --entrypoint=chown -i --rm $VIASH_EXTRA_MOUNTS ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0 "$(id -u):$(id -g)" --silent --recursive "$VIASH_PAR_OUTPUT"
618+
eval docker run --entrypoint=chown -i --rm $VIASH_EXTRA_MOUNTS ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0 "$(id -u):$(id -g)" --silent --recursive "$VIASH_PAR_OUTPUT"
619619
fi
620620
}
621621
trap ViashPerformChown EXIT
622622

623623

624-
cat << VIASHEOF | eval docker run --entrypoint=bash -i --rm $VIASH_EXTRA_MOUNTS ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0
624+
cat << VIASHEOF | eval docker run --entrypoint=bash -i --rm $VIASH_EXTRA_MOUNTS ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0
625625
set -e
626626
tempscript=\$(mktemp "$VIASH_TEMP/viash-run-maxquant_to_h5ad-XXXXXX")
627627
function clean_up {

‎target/docker/convert/maxquant_to_h5ad/viash.yaml‎

Lines changed: 11 additions & 11 deletions
Original file line numberDiff line numberDiff line change
@@ -1,7 +1,7 @@
11
functionality:
22
name: "maxquant_to_h5ad"
33
namespace: "convert"
4-
version: "0.1.0"
4+
version: "0.2.0"
55
authors:
66
- name: "Robrecht Cannoodt"
77
email: "[email protected]"
@@ -38,7 +38,7 @@ functionality:
3838
#!/usr/bin/env bash
3939
4040
################################
41-
# maxquant_to_h5ad 0.1.0 #
41+
# maxquant_to_h5ad 0.2.0 #
4242
################################
4343
4444
# This wrapper script is auto-generated by viash 0.5.10.1 and is thus a
@@ -186,7 +186,7 @@ functionality:
186186
187187
# ViashHelp: Display helpful explanation about this executable
188188
function ViashHelp {
189-
echo "maxquant_to_h5ad 0.1.0"
189+
echo "maxquant_to_h5ad 0.2.0"
190190
echo "Converting a MaxQuant output folder to an AnnData file."
191191
echo
192192
echo "Options:"
@@ -548,7 +548,7 @@ functionality:
548548
shift 1
549549
;;
550550
--version)
551-
echo "maxquant_to_h5ad 0.1.0"
551+
echo "maxquant_to_h5ad 0.2.0"
552552
exit
553553
;;
554554
--input)
@@ -607,13 +607,13 @@ functionality:
607607
608608
ViashDockerInstallationCheck
609609
if [ $VIASH_MODE == "docker_setup" ]; then
610-
ViashDockerSetup 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0' "$VIASH_DOCKER_SETUP_STRATEGY"
610+
ViashDockerSetup 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0' "$VIASH_DOCKER_SETUP_STRATEGY"
611611
exit 0
612612
fi
613-
ViashDockerSetup 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0' ifneedbepullelsecachedbuild
613+
ViashDockerSetup 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0' ifneedbepullelsecachedbuild
614614
if [ $VIASH_MODE == "docker_debug" ]; then
615-
ViashNotice "+ docker run --entrypoint=bash -i --rm -v "$(pwd)":/pwd --workdir /pwd -t 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0'"
616-
docker run --entrypoint=bash -i --rm -v "$(pwd)":/pwd --workdir /pwd -t 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0'
615+
ViashNotice "+ docker run --entrypoint=bash -i --rm -v "$(pwd)":/pwd --workdir /pwd -t 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0'"
616+
docker run --entrypoint=bash -i --rm -v "$(pwd)":/pwd --workdir /pwd -t 'ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0'
617617
exit 0
618618
fi
619619
@@ -653,13 +653,13 @@ functionality:
653653
function ViashPerformChown {
654654
655655
if [ ! -z "$VIASH_PAR_OUTPUT" ]; then
656-
eval docker run --entrypoint=chown -i --rm $VIASH_EXTRA_MOUNTS ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0 "$(id -u):$(id -g)" --silent --recursive "$VIASH_PAR_OUTPUT"
656+
eval docker run --entrypoint=chown -i --rm $VIASH_EXTRA_MOUNTS ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0 "$(id -u):$(id -g)" --silent --recursive "$VIASH_PAR_OUTPUT"
657657
fi
658658
}
659659
trap ViashPerformChown EXIT
660660
661661
662-
cat << VIASHEOF | eval docker run --entrypoint=bash -i --rm $VIASH_EXTRA_MOUNTS ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.1.0
662+
cat << VIASHEOF | eval docker run --entrypoint=bash -i --rm $VIASH_EXTRA_MOUNTS ghcr.io/czbiohub/mspipelines/convert_maxquant_to_h5ad:0.2.0
663663
set -e
664664
tempscript=\$(mktemp "$VIASH_TEMP/viash-run-maxquant_to_h5ad-XXXXXX")
665665
function clean_up {
@@ -781,5 +781,5 @@ info:
781781
output: "target/docker/convert/maxquant_to_h5ad"
782782
executable: "target/docker/convert/maxquant_to_h5ad/maxquant_to_h5ad"
783783
viash_version: "0.5.10.1"
784-
git_commit: "8e79e8bf8eec1e53709307200814cebbd193994f"
784+
git_commit: "5046a99b14e96baf931187cdf0f0a9d40d39818a"
785785
git_remote: "[email protected]:czbiohub/mspipelines.git"

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