Inquiry about Kafka Paid Version

[Umar Mehar]

Hi,
I’m currently using Kafka community version but now for a bigger project we are 
looking if there’s a paid version available for Kafka.

Thanks,
Umar Iqbal

Re: [Yade-users] [Question #701030]: Why is my pyrunner command not being called?

[mehar]

Question #701030 on Yade changed:
https://answers.launchpad.net/yade/+question/701030

mehar posted a new comment:
I understand that if we want to use an existing engine (such as 
TriaxStressController or TriaxCompressionEngine), we must use the pyrunner 
command to adjust the simulation progress. We can't just drop the pyrunner into 
the O.engines.
https://www.cotondebois.com/

-- 
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[PATCH]: staging: hikey9xx: Fix alignment of function parameters

[Mukul Mehar]

This patch fixes the following checkpatch.pl check:

CHECK: Alignment should match open parenthesis

Signed-off-by: Mukul Mehar 
---
 drivers/staging/hikey9xx/hi6421-spmi-pmic.c | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/drivers/staging/hikey9xx/hi6421-spmi-pmic.c 
b/drivers/staging/hikey9xx/hi6421-spmi-pmic.c
index 9c5e113e1a81..4ebcfea9f3bf 100644
--- a/drivers/staging/hikey9xx/hi6421-spmi-pmic.c
+++ b/drivers/staging/hikey9xx/hi6421-spmi-pmic.c
@@ -177,7 +177,7 @@ static void hi6421_spmi_pmic_irq_init(struct 
hi6421_spmi_pmic *ddata)
 
for (i = 0; i < HISI_IRQ_ARRAY; i++)
regmap_write(ddata->regmap, SOC_PMIC_IRQ_MASK_0_ADDR + i,
-   HISI_MASK);
+HISI_MASK);
 
for (i = 0; i < HISI_IRQ_ARRAY; i++) {
regmap_read(ddata->regmap, SOC_PMIC_IRQ0_ADDR + i, );
@@ -235,7 +235,7 @@ static int hi6421_spmi_pmic_probe(struct spmi_device *pdev)
return -ENOMEM;
 
ddata->domain = irq_domain_add_simple(np, HISI_IRQ_NUM, 0,
-_spmi_domain_ops, ddata);
+ _spmi_domain_ops, ddata);
if (!ddata->domain) {
dev_err(dev, "Failed to create IRQ domain\n");
return -ENODEV;
-- 
2.25.1

[PATCH]: staging: hikey9xx: Fix alignment of function parameters

[Mukul Mehar]

This patch fixes the following checkpatch.pl check:

CHECK: Alignment should match open parenthesis

Signed-off-by: Mukul Mehar 
---
 drivers/staging/hikey9xx/hi6421-spmi-pmic.c | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/drivers/staging/hikey9xx/hi6421-spmi-pmic.c 
b/drivers/staging/hikey9xx/hi6421-spmi-pmic.c
index 9c5e113e1a81..4ebcfea9f3bf 100644
--- a/drivers/staging/hikey9xx/hi6421-spmi-pmic.c
+++ b/drivers/staging/hikey9xx/hi6421-spmi-pmic.c
@@ -177,7 +177,7 @@ static void hi6421_spmi_pmic_irq_init(struct 
hi6421_spmi_pmic *ddata)
 
for (i = 0; i < HISI_IRQ_ARRAY; i++)
regmap_write(ddata->regmap, SOC_PMIC_IRQ_MASK_0_ADDR + i,
-   HISI_MASK);
+HISI_MASK);
 
for (i = 0; i < HISI_IRQ_ARRAY; i++) {
regmap_read(ddata->regmap, SOC_PMIC_IRQ0_ADDR + i, );
@@ -235,7 +235,7 @@ static int hi6421_spmi_pmic_probe(struct spmi_device *pdev)
return -ENOMEM;
 
ddata->domain = irq_domain_add_simple(np, HISI_IRQ_NUM, 0,
-_spmi_domain_ops, ddata);
+ _spmi_domain_ops, ddata);
if (!ddata->domain) {
dev_err(dev, "Failed to create IRQ domain\n");
return -ENODEV;
-- 
2.25.1

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[PATCH v2] Drivers: staging: most: sound: Fixed styling issue.

[Mukul Mehar]

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.

Signed-off-by: Mukul Mehar 
---
Changes since v1:
 - Fixed indentation.
---
 drivers/staging/most/sound/sound.c | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c 
b/drivers/staging/most/sound/sound.c
index 4dd1bf95d1ce..4d497ce6d7b8 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -231,9 +231,9 @@ static int playback_thread(void *data)
wait_event_interruptible(channel->playback_waitq,
 kthread_should_stop() ||
 (channel->is_stream_running &&
-(mbo = most_get_mbo(channel->iface,
-channel->id,
-;
+ (mbo = most_get_mbo(channel->iface,
+ channel->id,
+ ;
if (!mbo)
continue;
 
-- 
2.25.1

[PATCH v2] Drivers: staging: most: sound: Fixed styling issue.

[Mukul Mehar]

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.

Signed-off-by: Mukul Mehar 
---
Changes since v1:
 - Fixed indentation.
---
 drivers/staging/most/sound/sound.c | 6 +++---
 1 file changed, 3 insertions(+), 3 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c 
b/drivers/staging/most/sound/sound.c
index 4dd1bf95d1ce..4d497ce6d7b8 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -231,9 +231,9 @@ static int playback_thread(void *data)
wait_event_interruptible(channel->playback_waitq,
 kthread_should_stop() ||
 (channel->is_stream_running &&
-(mbo = most_get_mbo(channel->iface,
-channel->id,
-;
+ (mbo = most_get_mbo(channel->iface,
+ channel->id,
+ ;
if (!mbo)
continue;
 
-- 
2.25.1

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[PATCH] Drivers: staging: most: sound: Fixed styling issue.

[Mukul Mehar]

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c 
b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
struct mbo *mbo = NULL;
bool period_elapsed = false;
 
-   wait_event_interruptible(
-   channel->playback_waitq,
-   kthread_should_stop() ||
-   (channel->is_stream_running &&
-(mbo = most_get_mbo(channel->iface, channel->id,
-;
+   wait_event_interruptible(channel->playback_waitq,
+kthread_should_stop() ||
+(channel->is_stream_running &&
+(mbo = most_get_mbo(channel->iface,
+channel->id,
+;
if (!mbo)
continue;
 
-- 
2.25.1

[PATCH] Drivers: staging: most: sound: Fixed styling issue.

[Mukul Mehar]

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c 
b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
struct mbo *mbo = NULL;
bool period_elapsed = false;
 
-   wait_event_interruptible(
-   channel->playback_waitq,
-   kthread_should_stop() ||
-   (channel->is_stream_running &&
-(mbo = most_get_mbo(channel->iface, channel->id,
-;
+   wait_event_interruptible(channel->playback_waitq,
+kthread_should_stop() ||
+(channel->is_stream_running &&
+(mbo = most_get_mbo(channel->iface,
+channel->id,
+;
if (!mbo)
continue;
 
-- 
2.25.1
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[PATCH] Drivers: staging: most: sound: Fixed styling issue.

[Mukul Mehar]

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c 
b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
struct mbo *mbo = NULL;
bool period_elapsed = false;
 
-   wait_event_interruptible(
-   channel->playback_waitq,
-   kthread_should_stop() ||
-   (channel->is_stream_running &&
-(mbo = most_get_mbo(channel->iface, channel->id,
-;
+   wait_event_interruptible(channel->playback_waitq,
+kthread_should_stop() ||
+(channel->is_stream_running &&
+(mbo = most_get_mbo(channel->iface,
+channel->id,
+;
if (!mbo)
continue;
 
-- 
2.25.1

[PATCH] Drivers: staging: most: sound: Fixed styling issue.

[Mukul Mehar]

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c 
b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
struct mbo *mbo = NULL;
bool period_elapsed = false;
 
-   wait_event_interruptible(
-   channel->playback_waitq,
-   kthread_should_stop() ||
-   (channel->is_stream_running &&
-(mbo = most_get_mbo(channel->iface, channel->id,
-;
+   wait_event_interruptible(channel->playback_waitq,
+kthread_should_stop() ||
+(channel->is_stream_running &&
+(mbo = most_get_mbo(channel->iface,
+channel->id,
+;
if (!mbo)
continue;
 
-- 
2.25.1
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[PATCH]: drivers: staging: most: Fixed styling issue.

[Mukul Mehar]

>From 29bcaf0066003983da29b1e026b985c0727b091a Mon Sep 17 00:00:00 2001
From: Mukul Mehar 
Date: Mon, 8 Feb 2021 01:03:06 +0530
Subject: [PATCH] Drivers: staging: most: sound: Fixed style issue.

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
 		struct mbo *mbo = NULL;
 		bool period_elapsed = false;
 
-		wait_event_interruptible(
-			channel->playback_waitq,
-			kthread_should_stop() ||
-			(channel->is_stream_running &&
-			 (mbo = most_get_mbo(channel->iface, channel->id,
-	 ;
+		wait_event_interruptible(channel->playback_waitq,
+	 kthread_should_stop() ||
+	 (channel->is_stream_running &&
+	 (mbo = most_get_mbo(channel->iface,
+	 channel->id,
+	 ;
 		if (!mbo)
 			continue;
 
-- 
2.25.1

[PATCH]: drivers: staging: most: Fixed styling issue.

[Mukul Mehar]

>From 29bcaf0066003983da29b1e026b985c0727b091a Mon Sep 17 00:00:00 2001
From: Mukul Mehar 
Date: Mon, 8 Feb 2021 01:03:06 +0530
Subject: [PATCH] Drivers: staging: most: sound: Fixed style issue.

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
 		struct mbo *mbo = NULL;
 		bool period_elapsed = false;
 
-		wait_event_interruptible(
-			channel->playback_waitq,
-			kthread_should_stop() ||
-			(channel->is_stream_running &&
-			 (mbo = most_get_mbo(channel->iface, channel->id,
-	 ;
+		wait_event_interruptible(channel->playback_waitq,
+	 kthread_should_stop() ||
+	 (channel->is_stream_running &&
+	 (mbo = most_get_mbo(channel->iface,
+	 channel->id,
+	 ;
 		if (!mbo)
 			continue;
 
-- 
2.25.1
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[PATCH]: checkpatch: Fixed styling issue

[Mukul Mehar]

>From 29bcaf0066003983da29b1e026b985c0727b091a Mon Sep 17 00:00:00 2001
From: Mukul Mehar 
Date: Mon, 8 Feb 2021 01:03:06 +0530
Subject: [PATCH] Drivers: staging: most: sound: Fixed style issue.

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.
This is my first patch.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
 		struct mbo *mbo = NULL;
 		bool period_elapsed = false;
 
-		wait_event_interruptible(
-			channel->playback_waitq,
-			kthread_should_stop() ||
-			(channel->is_stream_running &&
-			 (mbo = most_get_mbo(channel->iface, channel->id,
-	 ;
+		wait_event_interruptible(channel->playback_waitq,
+	 kthread_should_stop() ||
+	 (channel->is_stream_running &&
+	 (mbo = most_get_mbo(channel->iface,
+	 channel->id,
+	 ;
 		if (!mbo)
 			continue;
 
-- 
2.25.1

[PATCH]: checkpatch: Fixed styling issue

[Mukul Mehar]

>From 29bcaf0066003983da29b1e026b985c0727b091a Mon Sep 17 00:00:00 2001
From: Mukul Mehar 
Date: Mon, 8 Feb 2021 01:03:06 +0530
Subject: [PATCH] Drivers: staging: most: sound: Fixed style issue.

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.
This is my first patch.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
 		struct mbo *mbo = NULL;
 		bool period_elapsed = false;
 
-		wait_event_interruptible(
-			channel->playback_waitq,
-			kthread_should_stop() ||
-			(channel->is_stream_running &&
-			 (mbo = most_get_mbo(channel->iface, channel->id,
-	 ;
+		wait_event_interruptible(channel->playback_waitq,
+	 kthread_should_stop() ||
+	 (channel->is_stream_running &&
+	 (mbo = most_get_mbo(channel->iface,
+	 channel->id,
+	 ;
 		if (!mbo)
 			continue;
 
-- 
2.25.1

[PATCH]: checkpatch: Fixed styling issue

[Mukul Mehar]

>From 29bcaf0066003983da29b1e026b985c0727b091a Mon Sep 17 00:00:00 2001
From: Mukul Mehar 
Date: Mon, 8 Feb 2021 01:03:06 +0530
Subject: [PATCH] Drivers: staging: most: sound: Fixed style issue.

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.
This is my first patch.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
 		struct mbo *mbo = NULL;
 		bool period_elapsed = false;
 
-		wait_event_interruptible(
-			channel->playback_waitq,
-			kthread_should_stop() ||
-			(channel->is_stream_running &&
-			 (mbo = most_get_mbo(channel->iface, channel->id,
-	 ;
+		wait_event_interruptible(channel->playback_waitq,
+	 kthread_should_stop() ||
+	 (channel->is_stream_running &&
+	 (mbo = most_get_mbo(channel->iface,
+	 channel->id,
+	 ;
 		if (!mbo)
 			continue;
 
-- 
2.25.1
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[PATCH]: checkpatch: Fixed styling issue

[Mukul Mehar]

>From 29bcaf0066003983da29b1e026b985c0727b091a Mon Sep 17 00:00:00 2001
From: Mukul Mehar 
Date: Mon, 8 Feb 2021 01:03:06 +0530
Subject: [PATCH] Drivers: staging: most: sound: Fixed style issue.

This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.
This is my first patch.

Signed-off-by: Mukul Mehar 
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
 		struct mbo *mbo = NULL;
 		bool period_elapsed = false;
 
-		wait_event_interruptible(
-			channel->playback_waitq,
-			kthread_should_stop() ||
-			(channel->is_stream_running &&
-			 (mbo = most_get_mbo(channel->iface, channel->id,
-	 ;
+		wait_event_interruptible(channel->playback_waitq,
+	 kthread_should_stop() ||
+	 (channel->is_stream_running &&
+	 (mbo = most_get_mbo(channel->iface,
+	 channel->id,
+	 ;
 		if (!mbo)
 			continue;
 
-- 
2.25.1

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[PATCH]: checkpatch: Fixed styling issue

[Mukul Mehar]

>From 29bcaf0066003983da29b1e026b985c0727b091a Mon Sep 17 00:00:00 2001
From: Mukul Mehar 
Date: Mon, 8 Feb 2021 01:03:06 +0530
Subject: [PATCH] Drivers: staging: most: sound: Fixed style issue.
Signed-off-by: Mukul Mehar 


This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.
This is my first patch.
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
 		struct mbo *mbo = NULL;
 		bool period_elapsed = false;
 
-		wait_event_interruptible(
-			channel->playback_waitq,
-			kthread_should_stop() ||
-			(channel->is_stream_running &&
-			 (mbo = most_get_mbo(channel->iface, channel->id,
-	 ;
+		wait_event_interruptible(channel->playback_waitq,
+	 kthread_should_stop() ||
+	 (channel->is_stream_running &&
+	 (mbo = most_get_mbo(channel->iface,
+	 channel->id,
+	 ;
 		if (!mbo)
 			continue;
 
-- 
2.25.1

[PATCH]: checkpatch: Fixed styling issue

[Mukul Mehar]

>From 29bcaf0066003983da29b1e026b985c0727b091a Mon Sep 17 00:00:00 2001
From: Mukul Mehar 
Date: Mon, 8 Feb 2021 01:03:06 +0530
Subject: [PATCH] Drivers: staging: most: sound: Fixed style issue.
Signed-off-by: Mukul Mehar 


This patch fixes a warning, of the line ending with a '(',
generated by checkpatch.pl.
This is my first patch.
---
 drivers/staging/most/sound/sound.c | 12 ++--
 1 file changed, 6 insertions(+), 6 deletions(-)

diff --git a/drivers/staging/most/sound/sound.c b/drivers/staging/most/sound/sound.c
index 3a1a59058042..4dd1bf95d1ce 100644
--- a/drivers/staging/most/sound/sound.c
+++ b/drivers/staging/most/sound/sound.c
@@ -228,12 +228,12 @@ static int playback_thread(void *data)
 		struct mbo *mbo = NULL;
 		bool period_elapsed = false;
 
-		wait_event_interruptible(
-			channel->playback_waitq,
-			kthread_should_stop() ||
-			(channel->is_stream_running &&
-			 (mbo = most_get_mbo(channel->iface, channel->id,
-	 ;
+		wait_event_interruptible(channel->playback_waitq,
+	 kthread_should_stop() ||
+	 (channel->is_stream_running &&
+	 (mbo = most_get_mbo(channel->iface,
+	 channel->id,
+	 ;
 		if (!mbo)
 			continue;
 
-- 
2.25.1

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[spctools-discuss] Related to St Peter tool in TPP

[Mehar Un Nissa]

Hello TPP Team,
I want to use St. Peter tool in TPP for Label free quantification of some
dataset.
Once I go to TPP Tools--> Quantify Label Free (MS2), the web page
redirected to the login page when I login again some error is coming as
under:

[image: image.png]

Could you please through some light in this regard.
Looking forward to hearing from you.
Thanks and regards,

*Mehar Un Nissa*
Research Scholar,
Proteomics Lab.
Department of Biosciences and Bioengineering,
Indian Institute of Technology, Bombay-400076

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Re: [spctools-discuss] Query related to protein abundances in TPP

[Mehar Un Nissa]

Hi Robert,

Thank you very much for quick response.


On Tue, Aug 25, 2020, 17:34 Robert Winkler 
wrote:

> Hi,
>
>  You could use ProtyQuant, which calculates the 'accumulated peptide
>  presence' for each hypothetical protein:
>
>
> https://chemrxiv.org/articles/preprint/ProtyQuant_Comparing_Label-Free_Shotgun_Proteomics_Datasets_Using_Accumulated_Peptide_Probabilities/12404363
>
> The algorithm is similar to spectral counting (e.g. used by the StPeter
> plugin of the TFF), but integrating the protein inference calculation
> and quantification.
>
> The input files are pepXML of the Trans-Proteomic Pipeline. Results are
> plain text files (tables.)
>
> You can find the software at:
> https://bitbucket.org/lababi/protyquant/
>
> Feedback and questions are welcome (the manuscript is currently under
> review).
>
> Best regards, Robert
>
> Excerpts from Mehar Un Nissa's message of 2020-08-25 14:47:34 +0530:
> > Dear Sir/Madam,
> > Which tool in TPP is used to get the abundance value or is there any
> other
> > way to measure the protein expression?
> >
> >  I look forward to hearing from you.
> >
> > Thanks and regards,
> >
> > *Mehar Un Nissa*
> > Research Scholar,
> > Proteomics Lab.
> > Department of Biosciences and Bioengineering,
> > Indian Institute of Technology, Bombay-400076
> >
>
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> To view this discussion on the web visit
> https://groups.google.com/d/msgid/spctools-discuss/1598356573-sup-6526%40rob-Lenovo-Y720-15IKB
> .
>

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[spctools-discuss] Query related to protein abundances in TPP

[Mehar Un Nissa]

Dear Sir/Madam,
Which tool in TPP is used to get the abundance value or is there any other
way to measure the protein expression?

 I look forward to hearing from you.

Thanks and regards,

*Mehar Un Nissa*
Research Scholar,
Proteomics Lab.
Department of Biosciences and Bioengineering,
Indian Institute of Technology, Bombay-400076

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[spctools-discuss] Query related to PTMprophet results in TPP

[Mehar Un Nissa]

Dear Sir/Madam,


I have a query related to PTMprophet analysis.


I performed comet search for an mzml file and put it for further analysis
as under:



-Using TPP tools Analyse peptides Checked for iprophet proteinprophet
PTMprophet


-Mass added for PTMs were:


- 79.966 Da for Phosphorylation- STY



I filtered the data on the basis of error table values.


- I exported the excel showing results as under.


[image: image.png]


  *Query: Everything is fine except that the position of modified amino
acid is not there, only the mass is there and amino acid is highlighted. *



*How can I get to know the modified site (I mean exact position of modified
amino acid?*


*Is there a way that I can get these modified sites with respect to
protein. e.g. S27 or T82 etc. *



Could you please help me for this.


Thanks and regards,

*Mehar Un Nissa*
Research Scholar,
Proteomics Lab.
Department of Biosciences and Bioengineering,
Indian Institute of Technology, Bombay-400076

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Re: [ansible-project] CentOS repository patching

[Snehal Mehar]

Thank you Dick for your reply. I was able to solve it when I added extra
repo configuration in the centos.repo.j2 file. See below...

==

[base]
name = CentOS-Base
baseurl = http://mirror.centos.org/{{ ansible_distribution | lower }}/{{
ansible_distribution_major_version }}/os/{{ ansible_architecture }}
gpgkey = file:///etc/pki/rpm-gpg/RPM-GPG-KEY-CentOS-7
gpgcheck = 1
enabled = 1

[updates]
name = CentOS-Updates
baseurl = http://mirror.centos.org/{{ ansible_distribution | lower }}/{{
ansible_distribution_major_version }}/updates/{{ ansible_architecture }}
gpgkey = file:///etc/pki/rpm-gpg/RPM-GPG-KEY-CentOS-7
gpgcheck = 1
enabled = 1

[extras]
name = CentOS-Extras
baseurl = http://mirror.centos.org/{{ ansible_distribution | lower }}/{{
ansible_distribution_major_version }}/extras/{{ ansible_architecture }}
gpgkey = file:///etc/pki/rpm-gpg/RPM-GPG-KEY-CentOS-7
gpgcheck = 1
enabled = 1

[centosplus]
name = CentOS-Plus
baseurl = http://mirror.centos.org/{{ ansible_distribution | lower }}/{{
ansible_distribution_major_version }}/centosplus/{{ ansible_architecture }}
gpgkey = file:///etc/pki/rpm-gpg/RPM-GPG-KEY-CentOS-7
gpgcheck = 1
enabled = 1

Thanks,
Snehal

On Thu, Jun 25, 2020 at 8:34 AM Dick Visser  wrote:

>
> This sounds like the repo file template isn't constructed properly.
>
> Did you compare the resulting repo file with one that you know works on
> another server?
>
> On Tue, 23 Jun 2020 at 14:31, Snehal Mehar  wrote:
>
>> Hello,
>>
>> I need help with setting up Centos client-server with centos repository
>> URL. It should add a repository URL to the client-server and patch to the
>> next available version identifying the existing os version.
>>
>> I have created a role but the patching task gets failed because of no
>> mirrors found. Any help here would be appreciated.
>>
>>
>> ===
>> main.yml code:
>>
>> - name: Perform Patch
>>   include_tasks: centos.yml
>>   when: ansible_distribution == "CentOS"
>>
>> - name: Perform Patch
>>   include_tasks: redhat.yml
>>   when: ansible_distribution == "RedHat"
>>
>> - name: Perform Patch
>>   include_tasks: ubuntu.yml
>>   when: ansible_distribution == "Ubuntu" or ansible_distribution ==
>> "Debian"
>>
>> - name: Perform Patch
>>   include_tasks: suse.yml
>>   when: ansible_distribution == "openSUSE Leap"
>>
>>
>> ==
>> centos.yml code:
>>
>>   - name: Enable centos repo in yum
>>
>> template:
>>
>>   src: centos.repo.j2
>>
>>   dest: /etc/yum.repos.d/CentOS-Base.repo
>>
>>
>>   - name: Check Dist Version
>>
>> shell: cat /etc/redhat-release
>>
>> register: response
>>
>>
>>
>>   - name: Contents of the register
>>
>> debug: msg="{{ response.stdout }}"
>>
>>
>>
>>   - name: Distribution
>>
>> debug: msg="{{ ansible_distribution }}"
>>
>>
>>
>>   - name: Distribution version
>>
>> debug: msg="{{ ansible_distribution_version}}"
>>
>>
>>
>>   - name: Distribution major version
>>
>> debug: msg="{{ ansible_distribution_major_version }}"
>>
>>
>>
>>   - name: Upgrade all installed packages for CentOS
>>
>> yum:
>>
>>   name: "*"
>>
>>   state: latest
>>
>> when: ansible_distribution == "CentOS"
>>
>> =
>>
>> centos.repo.j2 file in template:
>>
>> [base]
>> name = CentOS
>> baseurl = http://mirror.centos.org/{{ ansible_distribution | lower }}/{{
>> ansible_distribution_major_version }}/updates/{{ ansible_architecture }}
>> gpgkey = file:///etc/pki/rpm-gpg/RPM-GPG-KEY-CentOS-7
>> gpgcheck = 1
>> enabled = 1
>>
>>
>> ==
>>
>> Error:
>>
>> TASK [template.patching : Upgrade all installed packages for CentOS]
>> **

[ansible-project] CentOS repository patching

[Snehal Mehar]

Hello,

I need help with setting up Centos client-server with centos repository 
URL. It should add a repository URL to the client-server and patch to the 
next available version identifying the existing os version. 

I have created a role but the patching task gets failed because of no 
mirrors found. Any help here would be appreciated. 

===
main.yml code:

- name: Perform Patch
  include_tasks: centos.yml
  when: ansible_distribution == "CentOS"

- name: Perform Patch
  include_tasks: redhat.yml
  when: ansible_distribution == "RedHat"

- name: Perform Patch
  include_tasks: ubuntu.yml
  when: ansible_distribution == "Ubuntu" or ansible_distribution == "Debian"

- name: Perform Patch
  include_tasks: suse.yml
  when: ansible_distribution == "openSUSE Leap"

==
centos.yml code: 

  - name: Enable centos repo in yum

template:

  src: centos.repo.j2

  dest: /etc/yum.repos.d/CentOS-Base.repo


  - name: Check Dist Version

shell: cat /etc/redhat-release

register: response



  - name: Contents of the register

debug: msg="{{ response.stdout }}"



  - name: Distribution

debug: msg="{{ ansible_distribution }}"



  - name: Distribution version

debug: msg="{{ ansible_distribution_version}}"



  - name: Distribution major version

debug: msg="{{ ansible_distribution_major_version }}"



  - name: Upgrade all installed packages for CentOS

yum:

  name: "*"

  state: latest

when: ansible_distribution == "CentOS"
=

centos.repo.j2 file in template:

[base]
name = CentOS
baseurl = http://mirror.centos.org/{{ ansible_distribution | lower }}/{{ 
ansible_distribution_major_version }}/updates/{{ ansible_architecture }}
gpgkey = file:///etc/pki/rpm-gpg/RPM-GPG-KEY-CentOS-7
gpgcheck = 1
enabled = 1

==

Error:

TASK [template.patching : Upgrade all installed packages for CentOS] 
**
fatal: [waldevprodcen02]: FAILED! => {"changed": true, "changes": 
{"installed": [], "updated": [["freerdp-libs", "2.0.0-4.rc4.el7_8.x86_64 
from base"] Not found\nError: Package: vinagre-3.22.0-9.el7.x86_64 
(@anaconda)\n   Requires: libfreerdp-utils.so.1.0()(64bit)\n
   Removing: freerdp-libs-1.0.2-15.el7.x86_64 (@anaconda)\n  
 libfreerdp-utils.so.1.0()(64bit)\n   Updated By: 
freerdp-libs-2.0.0-4.rc4.el7_8.x86_64 (base)\n   Not 
found\nError: Package: mesa-libxatracker-18.3.4-7.el7_8.1.x86_64 (base)\n  
 Requires: libLLVM-7-rhel.so(LLVM_7)(64bit)\nError: Package: 
1:java-1.7.0-openjdk-headless-1.7.0.261-2.6.22.2.el7_8.x86_64 (base)\n  
 Requires: nss-softokn(x86-64) >= 3.44.0\n   Installed: 
nss-softokn-3.36.0-5.el7_5.x86_64 (@anaconda)\n  
 nss-softokn(x86-64) = 3.36.0-5.el7_5\nError: Package: 
vinagre-3.22.0-9.el7.x86_64 (@anaconda)\n   Requires: 
libfreerdp-rail.so.1.0()(64bit)\n   Removing: 
freerdp-libs-1.0.2-15.el7.x86_64 (@anaconda)\n  
 libfreerdp-rail.so.1.0()(64bit)\n   Updated By: 
freerdp-libs-2.0.0-4.rc4.el7_8.x86_64 (base)\n   Not 
found\nError: Package: 12:dhclient-4.2.5-68.el7.centos.1.x86_64 
(@anaconda)\n   Requires: libisc-export.so.95()(64bit)\n  
 Removing: 32:bind-libs-lite-9.9.4-72.el7.x86_64 (@anaconda)\n  
 libisc-export.so.95()(64bit)\n   Updated By: 
32:bind-libs-lite-9.11.4-16.P2.el7_8.6.x86_64 (base)\n   Not 
found\nError:

PLAY RECAP 

waldevprodcen02: ok=8changed=1unreachable=0
failed=1skipped=0rescued=0ignored=0



Centos URL:

http://mirror.centos.org/centos/7/


Thanks,
Snehal



































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[spctools-discuss] Re: Query related to Lorikeet viewer PTMprophet results in TPP

[Mehar Un Nissa]

Dear Sir/Madam,
Please reply to my query in the above mail.
Thanks and regards,

*Mehar Un Nissa*
Research Scholar,
Proteomics Lab.
Department of Biosciences and Bioengineering,
Indian Institute of Technology, Bombay-400076


On Wed, Mar 4, 2020 at 11:38 AM Mehar Un Nissa 
wrote:

> Hello Sir/Madam,
> We used TPP and PTMprophet for PTM analysis.
> PTM  taken (Phosphorylation- STY).
> *I want to see the spectra in Lorikeet viewer but it is showing following
> error.*
> [image: image.png]
>
> Please help me solve this.
> Looking forward to hearing from you.
>
> Thanks and regards,
>
> *Mehar Un Nissa*
> Research Scholar,
> Proteomics Lab.
> Department of Biosciences and Bioengineering,
> Indian Institute of Technology, Bombay-400076
>

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[spctools-discuss] Query related to Lorikeet viewer PTMprophet results in TPP

[Mehar Un Nissa]

Hello Sir/Madam,
We used TPP and PTMprophet for PTM analysis.
PTM  taken (Phosphorylation- STY).
*I want to see the spectra in Lorikeet viewer but it is showing following
error.*
[image: image.png]

Please help me solve this.
Looking forward to hearing from you.

Thanks and regards,

*Mehar Un Nissa*
Research Scholar,
Proteomics Lab.
Department of Biosciences and Bioengineering,
Indian Institute of Technology, Bombay-400076

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Django rest api connect with android mobile app

[Zain Mehar]

please anyone tell me how i connect my Django rest API with my Andriod 
mobile application please anyone tells? 

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Android + Django rest framework

[Zain Mehar]

please anyone tell me how i can connect my  Django rest API with Android 
mobile application

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[spctools-discuss] Query related to filtering PTMprophet results in TPP

[Mehar Un Nissa]

Hello Sir/Madam,
We used TPP and PTMprophet for PTM analysis.
PTM  taken (Phosphorylation- STY)

After comet followed by PTM prophet analysis this is how pepxml view is:
We are getting columns of probability and some other columns.
[image: C1.PNG]
PROBLEM: In the filtering options we are not getting option of *peptideprophet
probability and PTMprophet probabilities (although iprophet probability
option is coming). *
[image: C2.PNG]

Could you please help me solve this.


Looking forward to hearing from you
Thanks and regards,

*Mehar Un Nissa*
Research Scholar,
Proteomics Lab.
Department of Biosciences and Bioengineering,
Indian Institute of Technology, Bombay-400076

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[spctools-discuss] Query related to PTMprophet tool in TPP

[Mehar Un Nissa]

Dear Sir/Madam,


I have query related to PTMprophet. 


I performed comet search for an mzml file and put it for further analysis 
as under:

 

-Using TPP tools Analyse peptides Checked for iprophet proteinprophet 
PTMprophet


-Mass added for PTMs were:


o79.966 Da for Phosphorylation- STY


o14.016 Da for Methylation- KR


o42.011 Da for Acetylation- K


*Query: The analysis is getting failed with a warning message and an error 
saying*


*“unrecoganized mod taken….*


*Error: cannot initialize for sequence: SPRI….”* as in snapshot below.


Could you please help me solve this error. 


Thanks


[image: P5.PNG] 


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[Bug-wget] how to get start

[Guru Mehar]

Hi Team

I am guru mehar aka guru an embedded developer want to get involved in
contributing open source which i have no idea about.
i would like to contribute to the project at
*https://savannah.gnu.org/people/viewjob.php?group_id=6998_id=502
<https://savannah.gnu.org/people/viewjob.php?group_id=6998_id=502>* i
came across.
"Wget needs C developers for GNU Wget
<https://savannah.gnu.org/projects/wget>"
since the site contain so much documentation, i want to understand *where
to start* to contribute without being carried away.
i request you to guide with me on below:
1. which E-mail service is used commonly?
2. which guide let me understand the project flow?
and anything else i need to know as i am starting now.

thanks in advance.

-- 
regards,
guru

Flink threads cpu busy/stuck at NoFetchingInput.require (Versions 1.2 and 1.4)

[Mehar Simhadri (mesimhad)]

Hi Flink Community,

In our flink deployments, we see some flink threads are cpu busy/stuck after 
few hours with the below stack

"Sink:AggregationSink (2/4)" #567 daemon prio=5 os_prio=0 
tid=0x7f901dc97000 nid=0x254 runnable [0x7f8fe017f000]
java.lang.Thread.State: RUNNABLE
at 
org.apache.flink.api.java.typeutils.runtime.DataInputViewStream.read(DataInputViewStream.java:70)
at com.esotericsoftware.kryo.io.Input.fill(Input.java:146)
at 
org.apache.flink.api.java.typeutils.runtime.NoFetchingInput.require(NoFetchingInput.java:76)
at com.esotericsoftware.kryo.io.Input.readVarInt(Input.java:355)
at 
com.esotericsoftware.kryo.util.DefaultClassResolver.readClass(DefaultClassResolver.java:109)
at com.esotericsoftware.kryo.Kryo.readClass(Kryo.java:641)
at com.esotericsoftware.kryo.Kryo.readClassAndObject(Kryo.java:752)
at 
org.apache.flink.api.java.typeutils.runtime.kryo.KryoSerializer.deserialize(KryoSerializer.java:236)
at 
org.apache.flink.streaming.runtime.streamrecord.StreamElementSerializer.deserialize(StreamElementSerializer.java:187)
at 
org.apache.flink.streaming.runtime.streamrecord.StreamElementSerializer.deserialize(StreamElementSerializer.java:40)
at 
org.apache.flink.runtime.plugable.NonReusingDeserializationDelegate.read(NonReusingDeserializationDelegate.java:55)
at 
org.apache.flink.runtime.io.network.api.serialization.SpillingAdaptiveSpanningRecordDeserializer.getNextRecord(SpillingAdaptiveSpanningRecordDeserializer.java:109)
at 
org.apache.flink.streaming.runtime.io.StreamInputProcessor.processInput(StreamInputProcessor.java:147)
at 
org.apache.flink.streaming.runtime.tasks.OneInputStreamTask.run(OneInputStreamTask.java:63)
at 
org.apache.flink.streaming.runtime.tasks.StreamTask.invoke(StreamTask.java:261)
at org.apache.flink.runtime.taskmanager.Task.run(Task.java:656)
at java.lang.Thread.run(Thread.java:745)

Few observations from the stack, while it is stuck.
SpillingAdaptiveSpanningRecordDeserializer.getNextRecord
nonSpanningRemaining = 13

All these 13 bytes were read even before reaching 
com.esotericsoftware.kryo.io.Input.readVarInt

We are wondering is this a serialization bug or memory segment corruption?

Any pointers on how to debug further will be much appreciated.

Regards,
Mehar

Re: [silk] Mental Illness, Relationships, and Awareness

[Rajesh Mehar]

Hi Vani,

I haven't had to deal with mental illness in myself or in my immediate
family.

But I have seen several people discussing mental health and getting support
from each other online.

E.g. On Twitter, there is a handle @therestlessquil operated by a woman who
regularly discusses mental illness. In fact, just this morning she was
asking people dealing with Bipolar to respond to get thread because she is
thinking of organizing group therapy.

Also, a close friend whose mother deals with some pretty intense mental
health issues had found The White Swan to be a great resource. Especially
from the perspective of the caregiver, which often goes unacknowledged:
http://www.whiteswanfoundation.org

Hope this information helps you.

On Mon, Jan 15, 2018, 10:59 Vani Murarka  wrote:

> I have multiple sclerosis. It is a result of trying to meet the ailment
> proactively and as responsibly as I can, that I learnt about observing the
> energy space in me and others.
>
> My brother has bipolar. Currently he is in one of his manic phases. His
> condition places acute strain on the family. It is all quite terrifying at
> times. In all this, I continue to try and observe the energy space, in him,
> in me, and in whatever is happening in the family -- in each individual and
> as a organism as a whole.
>
> I feel my only job here is to love. To love each and every person as best
> as I can. I feel, that to love a person is to see that person, and to see
> is to see beauty. All else is blindness. Of course in all this, the first
> thing is to love myself and to see beauty in myself.
>
> Whenever I am unable to see beauty in a person, to me that is an indication
> that I am not seeing correctly, and so I try as best as I can to further
> see my thoughts and emotions, trying to understand that person better,
> until I can see that same behavior of the person from another perspective
> which makes me feel I have a better understanding of where he/she is coming
> from.
>
> In the present configuration, I feel this is the only option available to
> me, the only job I can perform and doing so maybe is also in some subtle
> manner playing a positive role in the scheme of things. However, yes, it
> does get harrowing. It is not just my brother's behavior, but also what
> quirks each and every family member brings to the whole thing, my own
> quirks and vulnerabilities etc. etc. etc.
>
> Is there anyone else here whose family member has some mental illness, or
> who himself / herself is dealing with the challenge of having some mental
> illness? Would you like to share how you deal with it and what you have
> learnt so far from being in that experience?
>
>
>
> --
>
> Vani Murarka
>
> * vani expressions - blog writings <
> http://manaskriti.com/vani-expressions/>
> * काव्यालय (Kaavyaalaya: House of Hindi Poetry) 
> * गीत गतिरूप - कवि का अनोखा साथी 
>

Re: [silk] Which came first? Ctrl+Alt+Del OR Command+Option+Esc

[Rajesh Mehar]

Thank you Suresh and Venkat.

On Wed, Nov 29, 2017, 11:58 Suresh Ramasubramanian <sur...@hserus.net>
wrote:

> ctrl alt del dates back to 81 as a soft reboot in MS DOS on IBM PCs.
> Making it a login shortcut is from win NT much later in 1993
>
> The command key was introduced in 1980 on the Apple III but option dates
> to 1986 and the Apple IIgs
>
> So ctrl alt del is the clear winner here
>
> --srs
>
> > On 29-Nov-2017, at 10:24 AM, Rajesh Mehar <rajeshme...@gmail.com> wrote:
> >
> > I'm wondering if the Apple Command+Option+Escape key combination came to
> be
> > later than the equivalent Windows Ctrl+Alt+Del key combination or if they
> > were introduced around the same time.
> >
> > Does anyone here know?
>
>
>

[silk] Which came first? Ctrl+Alt+Del OR Command+Option+Esc

[Rajesh Mehar]

I'm wondering if the Apple Command+Option+Escape key combination came to be
later than the equivalent Windows Ctrl+Alt+Del key combination or if they
were introduced around the same time.

Does anyone here know?

Re: [silk] The end of the teens

[Rajesh Mehar]

Tentative +1 (attendance will depend on childcare options falling in place
for the date of the meetup)

On Thu, Nov 23, 2017, 18:26 Venkat  wrote:

> +1 for 17th. I'm out on 15th and 16th.
>
> On 23/11/17 4:55 PM, Suresh Ramasubramanian wrote:
> > +1
> >
> > On 23/11/17, 3:29 PM, "silklist on behalf of Biju Chacko"
>  biju.cha...@gmail.com> wrote:
> >
> >  On Thu, Nov 23, 2017 at 7:40 AM, Udhay Shankar N 
> wrote:
> >  > Sounds good. I will be traveling from the 21st onwards, so
> perhaps the
> >  > previous weekend? Anytime between 15-17 Dec 2017. Show of hands?
> >
> >  *raises hand*
> >
> >
> >
> >
> >
>
> --
>
> Cheers,
> Venkat
>
>
>

Re: [silk] Bangalore Help Needed

[Rajesh Mehar]

Thanks gaurav and Ashwin,

Co-working space won't work because the work of a law practice requires a
significant amount of drawer space for storing many case files and
bookshelves for law books which need regular reference. It's just not
conducive.

Looking for individual spaces.

On Sat, Nov 18, 2017, 19:32 Ashwin Kumar <ashw...@live.in> wrote:

> Rajesh
>
> Vidhi is located out of the WeWorks space in Brigade Road and they got a
> pretty decent deal. Is anyone from Vidhi on this group?
>
> ~ashwin
>
> ~ashwin
> 
> From: silklist <silklist-bounces+ashwink=live...@lists.hserus.net> on
> behalf of Gaurav Vaz <m...@gauravvaz.com>
> Sent: Saturday, November 18, 2017 3:43:21 PM
> To: silklist@lists.hserus.net
> Subject: Re: [silk] Bangalore Help Needed
>
> I know that a couple of NGOs operate out of WeWork in Bangalore and they’ve
> gotten a pretty decent deal. I don’t know if that is personal contacts /
> favours or if they will do this for more people. Might be worth exploring?
>
> -Gaurav
>
> On Sat, Nov 18, 2017 at 12:43 PM, Rajesh Mehar <rajeshme...@gmail.com>
> wrote:
>
> > Hi Silklisters,
> >
> > I need some urgent help in Bangalore.
> >
> > An advocate friend of mine needs to move out of her current office and is
> > looking for a new office. But it's not just a simple real estate search,
> > because...
> >
> > Her practice has a high pro bono component and clients need her office to
> > be close to a well serviced bus stand and the Metro. Also, she and her
> > colleagues shuttle between the family court, the city civil court, the
> high
> > court, and the magistrates court. So, the ideal area in which her office
> > needs to be is infantry road, Church Street, Cubbon Road, and
> thereabouts.
> >
> > Unfortunately these areas have become highly gentrified recently and the
> > asking rents are at sell-a-kidney levels.
> >
> > So, if anyone has any leads to an office space (or could be a residential
> > space as long as the apartment society/association is ok to rent out to a
> > law practice) that satisfies the following criteria, please pass on
> leads.
> >
> > Requirements:
> > 1) 1000-1200 sq ft of space
> > 2) should have a dedicated toilet attached (ie no shared toilets that
> need
> > to be shared with other building occupants)
> > 3) within the infantry road, Cubbon Road, Church Street area. Or really
> > close to a metro station and a well serviced bus stop.
> > 4) landlord should be willing to rent for 2-3 years (at least 18 months)
> > 5) not exhorbitant rent
> >
> > PS:
> > a) Landlord need not worry about renting to lawyers, they are really
> > peaceful people.
> > b) We've already tried almost every broker in the area. Personal contacts
> > would be better. But if it's a super broker, please pass on those
> contacts
> > too.
> > c) Please help.
> >
>
>
>
> --
> If you choose not to decide, you still have made a choice!
>
> Gaurav Vaz | m...@gauravvaz.com | +91 99005 16145 |
> https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fgauravvaz.com=02%7C01%7Cashwink%40live.in%7C140bab28370e4d590edb08d52e6d142b%7C84df9e7fe9f640afb435%7C1%7C0%7C636465968369653300=Kvm%2B4ZGEzBNk43IMd%2F%2BkHhaPGKayH2wmrP8%2FzFRwfoI%3D=0
>

[silk] Bangalore Help Needed

[Rajesh Mehar]

Hi Silklisters,

I need some urgent help in Bangalore.

An advocate friend of mine needs to move out of her current office and is
looking for a new office. But it's not just a simple real estate search,
because...

Her practice has a high pro bono component and clients need her office to
be close to a well serviced bus stand and the Metro. Also, she and her
colleagues shuttle between the family court, the city civil court, the high
court, and the magistrates court. So, the ideal area in which her office
needs to be is infantry road, Church Street, Cubbon Road, and thereabouts.

Unfortunately these areas have become highly gentrified recently and the
asking rents are at sell-a-kidney levels.

So, if anyone has any leads to an office space (or could be a residential
space as long as the apartment society/association is ok to rent out to a
law practice) that satisfies the following criteria, please pass on leads.

Requirements:
1) 1000-1200 sq ft of space
2) should have a dedicated toilet attached (ie no shared toilets that need
to be shared with other building occupants)
3) within the infantry road, Cubbon Road, Church Street area. Or really
close to a metro station and a well serviced bus stop.
4) landlord should be willing to rent for 2-3 years (at least 18 months)
5) not exhorbitant rent

PS:
a) Landlord need not worry about renting to lawyers, they are really
peaceful people.
b) We've already tried almost every broker in the area. Personal contacts
would be better. But if it's a super broker, please pass on those contacts
too.
c) Please help.

Re: [silk] The end of the teens

[Rajesh Mehar]

I propose a "the one thing that I have learnt/become better at/thought
newly about because of Silk list thread."

Or the one memory from being on Silk list thread.

Nothing synchronous can be planned due to varying timezones right?

On Fri, Nov 17, 2017, 12:49 Landon Hurley  wrote:

>
>
> On 16 November 2017 23:14:30 GMT-08:00, Peter Griffin <
> peter.grif...@gmail.com> wrote:
> >On Fri, Nov 17, 2017 at 12:41 PM, Landon Hurley 
> >wrote:
> >
> >>
> >>
> >> On 16 November 2017 23:09:48 GMT-08:00, Mohit 
> >> wrote:
> >> >On Fri, Nov 17, 2017 at 12:35 PM, Peter Griffin
> >> >
> >> >wrote:
> >> >
> >> >> On Fri, Nov 17, 2017 at 12:22 PM, Udhay Shankar N
> >
> >> >wrote:
> >> >>
> >> >> > Folks:
> >> >> >
> >> >> > Silklist will turn 20 years old on Dec 19, 2017. Any ideas for
> >> >things to
> >> >> do
> >> >> > to celebrate? :)
> >> >> >
> >> >>
> >> >> 20 million disbursed to members?
> >> >>
> >> >​
> >> >you mean 20 million each, don't you?
> >> >
> >>
> >> Do we improve the likelihood of gift receipt if we are content with
> >the
> >> first option?
> >>
> >>
> >
> >
> >I left Udhay a loophole by not specifying what currency, Or even that
> >it is
> >currency.
>
> That is true; my default thought when you said it was that we should have
> an amount proportional to the value it adds to our lives. Of course, Udhay
> could always simply place it in a trust for the future posterity of the
> list.
>
>
> --
> Violence is the last refuge of the incompetent.
>
>

Re: [silk] Reintroducing myself

[Rajesh Mehar]

> Out of curiosity: What is the difference
> between active and passive lurking?

In my mind,

active lurking is reading the post and enjoying the discussion but
consciously (for whatever motive) not responding.

And passive lurking is mostly not reading the post and discussions but not
LEAVING the list or redirecting to a folder where it's it of view.

I've gone through both phases with Silk. Sometimes I'm in a phase of
solitude, where my intention is to listen and learn rather than talk and
teach. I actively lurk during phases like this.

Sometimes I've got something big in my life which needs all of my
mindspace, and in such phases processing an interesting idea or discussion
is actually a hindrance, and I will passively lurk through such phases.


On Fri, Nov 17, 2017, 07:49 Udhay Shankar N  wrote:

> On Thu, Nov 16, 2017 at 5:04 PM, Chandrachoodan Gopalakrishnan <
> chandrachoo...@gmail.com> wrote:
>
> Let me see, it's been 10 years on the list. After initial enthusiasm in
> > responding to all messages, I lurked, first actively and then passively.
> >
>
> ​Out of curiosity: What is the difference between active and passive
> lurking?​
>
> ​Udhay​
>
> --
>
> ((Udhay Shankar N)) ((udhay @ pobox.com)) ((www.digeratus.com))
>

Re: [silk] Reintroducing myself

[Rajesh Mehar]

Hi again Nadika,

Look forward to reading your thoughts here too. :-)


>
>

Re: [silk] Ashim - An Introduction

[Rajesh Mehar]

Oh n... It was a super idea.

On Tue, Nov 7, 2017, 14:32 Ashim D'Silva  wrote:

>
> Rajesh, it got hard to source diverse enough photographs that were useful
> stock I think. So we ran out of material.
>
>

Re: [silk] Ashim - An Introduction

[Rajesh Mehar]

I loved pickle jar. Why didn't it work out?

On Sun, Nov 5, 2017, 11:54 Ashim D'Silva  wrote:

>  we
> also tried running a photo site for a while that we’d love to get going
> again: http://picklejar.in
>
>
>

[silk] Happy Founder's Day

[Rajesh Mehar]

It's Udhay's birthday today! Happy birthday Udhay. I think this is an
appropriate forum to demand a Speech! Speech! Speech!

Tell us three interesting things you're thinking about today.

Re: [silk] Hello silklist

[Rajesh Mehar]

Hi Peter, welcome to Silk. Many fellow quiet readers and observers here.
Don't worry. But do jump in whenever you feel like it. Everyone gets a long
leash on Silk. :-)

On Thu, Oct 12, 2017, 16:23 Peter Griffin  wrote:

> Hi All
>
> (This feels like the first day of school)
>
> Thanks for inviting me in, Udhay.
>
> I intend to be mostly a quiet reader and observer until I get a feel
> of the etiquette of the list.
>
> Meanwhile, the quick About Me:
>
> I'm very fortunate with my friends. And thanks to the work I have done
> and my own limitations, I know a little about lots of things, but not
> very much about any single thing,
>
> The longer version:
>
> I've mostly earned my living as a writer of some kind, mainly in
> advertising, content creation, and journalism. I currently work with a
> newspaper, where I edit and commission more than write. Unpaid writing
> includes blogging and poetry.
>
> I have been a literary curator, and am an informal student of online
> culture and collaboration (and have been fortunate to be part of some
> cool collectives). I co-founded the writing forum Caferati and
> moderate its various web presences. And I advise a couple of
> non-profits and help others when I can.
>
> I recently got back to dabbling in sculpture (chalk, and now clay); if
> you know me on social media, I am likely to bore you to tears with
> lots of pictures of those or, even more likely, to send you off
> groaning with awful puns.I solemnly promise not to do the former here.
>
> best
>
> ~peter
>
>

Re: [silk] An introduction

[Rajesh Mehar]

Welcome Harnidh, I follow you on Twitter.

I'm close to 40 and still not much yet. :-)

On Fri, Aug 4, 2017, 11:29 Deepa Mohan  wrote:

> Welcome, Harnidh.
>
> Are there any young fogies on this list?
>
> Deepa.
>

Re: [silk] Silkmeet on June 29 - bangalore

[Rajesh Mehar]

Who wants to draw a Venn diagram of all of this? Heh.

On Mon, Jun 19, 2017, 16:33 Suresh Ramasubramanian 
wrote:

> Hopefully next week let me try
>
> --srs
>
> > On 19-Jun-2017, at 4:19 PM, Udhay Shankar N  wrote:
> >
> >
> > I'm mostly arriving on the 29th morning
> >>
> >> If I am able to schedule a work trip back to back I can also be in town
> a
> >> day or two earlier but this is doubtful.
> >>
> >
> > ​By when will you know?​
>
>
>

Re: [silk] Silkmeet on June 29 - bangalore

[Rajesh Mehar]

I'd like to come too.

On Mon, Jun 19, 2017, 07:47 Shyam Sunder  wrote:

> In. Looking forward to it.
>
> Warm regards, Shyam
>
> Sent from my iPhone
>
> > On 18-Jun-2017, at 22:26, Suresh Ramasubramanian 
> wrote:
> >
> > Hi, I'll be in town and Udhay suggested that we do a silk meet.  Please
> rsvp so a suitable bar can be located
> >
> > --srs
> >
>
>

Re: [silk] In praise of slowness

[Rajesh Mehar]

>>2. Studied piano. Played 3 piano concerts (as part of a group of pianists)
at St. Andrews Auditorium in Mumbai (with a proper audience, before you
ask). Also played a father-son concert with my older son.
3. Learnt how to read and write music. Used that to transcribe specific
songs that I've always liked - this led to interesting experiments in
arranging alternative approaches to songs, such as different tempi, bass
lines, flourishes at various places in the score...
Also ended up composing a few pieces for piano.  <<

Hey Rajeev, I would love to see any videos of your piano performances. And
also listen to any new arrangements you've created.


>
>

Re: [silk] In praise of slowness

[Rajesh Mehar]

I slowed down on 31 March 2011.

I used to work for an FM Radio station in Mumbai (having been transfered
there from the Bangalore station) and I had swiftly moved up the
organizational hierarchy from being an on-air presenter (or RJ) to being
creative supervisor, assistant program director to finally program director.

Between getting John Abraham's tuna sandwich from the Hyatt, to planning
station specials, gate keeping commercial integrations into programming,
and keeping abreast of Bollywood, I had very little time. And that wasn't
going to be enough for the kind of father i wanted to be. So, within 3
months of knowing about the impending arrival of my first child (a boy, I
would discover later) I quit, took a 20% pay cut and started working from
home for a large IT company.

Not having a 3 hour commute everyday, working in a team with a culture of
trust and collaboration, and not possessing a tv, means that I have time
for a lot of things like working out, cooking, free play with my children,
arbitrarily taking a 2 hour (one way) bus journey to a neighboring state
because my son's 5 year old brain felt like doing that one day, and just
existing very mindfully at a relaxed pace.

On the topic of removing clutter in an effort to work intensely but
impactfully, I would highly recommend Deep Work, by Cal Newport. It's a
superb resource for anyone wanting to 'slow down' in a
less-headless-chicken-work way rather than a three-beers-everyday-by-noon
way.

PS -  Really appreciate everyone's thoughts on this. It's given me a few
new directions to think in...

Re: [silk] Mysore Masala Dosa in Bangalore

[Rajesh Mehar]

Dosa in Bangalore is like Biryani in Hyderabad, it gets way too many hot
and heavy opinions. So, careful of online 'foodies' communities.

Also, the 'traditional' masala Dosa has been altered to suit modern
economics more than anything else. Nowadays there is almost nil Urad dal in
most commercially produced dosas and I'm sure you've heard of the
ubiquitous use of baking soda to make the batter rise.

Having said all that, if I wanted to get a masala Dosa in Bangalore, I
would make the trek to Malleswaram and eat at CTR. If I'm in a hurry I will
eat at Ganesh Darshan dosa camp in Jayanagar 3rd Block. My maximum outer
radius would be to eat masala Dosa at MTR (which is decent but gets a lot
of slack online for some reason ) or the Cheese Masala Dosa at Shanti Sagar
in Koramangala near the BDA complex or Vidyarthi Bhavan in Gandhi Bazaar.

Any other dosa is usually like a Pizza Corner pizza. You know it is a Pizza
but are convinced it's not one.

On Thu, Dec 8, 2016, 17:14 Biju Chacko  wrote:

> When I worked in Bombay for a bit about 15 years ago, the difference seemed
> to be that mysore masala dosa had mixed vegetables stuffing versus potato
> only in the regular dosa. For the latter, refer Venkat's mail. The former
> is an abomination which, I am glad to say, no reputed establishment in
> Bangalore will deign to serve.
>
> -- b
>
>
>
> On Thu, Dec 8, 2016 at 4:40 PM, Venkat Mangudi - Silk <
> s...@venkatmangudi.com> wrote:
>
> > If you mean masala dosa with chutney smeared inside, that is just a
> > regular masala dosa here. It’s called Mysore Masala Dosa in Mumbai and
> > places north. Good dosas at
> >
> > 1. Central Tiffin Room, Malleswaram
> > 2. Dosa camp, Jayanagar
> > 3. Food street, V V Puram (no sitting)
> > and many many more places.
> >
> > Cheers,
> > Venkat
> >
> >
> >
> > > On 08-Dec-2016, at 4:02 PM, Aditya Kapil  wrote:
> > >
> > > Anyone know any good Mysore Masala Dosa place in Bangalore? Preferably
> > > where one might sit and eat.
> > > Thanks, Adit.
> >
> >
>

Re: [silk] ... Chennai, Silk, Satin, Top Posting

[Rajesh Mehar]

In fact it's pretty much impossible to bottom post. Both on my phone and
laptop browser screen everything (including quoted text and response) gets
formatted as quoted text. It's really painful.

On Tue, Nov 8, 2016, 20:21 Shrabonti Bagchi  wrote:

> The top and bottom posting debate has been made redundant by the fact that
> most people now respond from their phones, which make it pretty painful to
> bottom post. Lahar, you won.
>
> On 08-Nov-2016 2:32 pm, "Preetha Chari-Srinivas" 
> wrote:
>
> > I second Deepa's take on this group.
> > Cheers,
> > Preetha.
> >
> > On Nov 8, 2016 2:29 PM, "Deepa Mohan"  wrote:
> >
> > > This list always gives me words I didn't know before, Thank you Dave.
> > > Intercalated" is now (by me) properly considered and accepted.
> > >
> > >
> > >
> > >
> > >
> > > On Tue, Nov 8, 2016 at 2:10 PM, Dave Long 
> wrote:
> > > >> Bangalore, Delhi, Chennai, Silk, Satin, Top Posting.
> > > >
> > > >
> > > > (with apologies to Stan Kelly-Bootle)
> > > > Should posted replies be "above" or "below"?  My compromise of
> > > > "intercalated" was rejected without, I thought, proper consideration.
> > > >
> > > >> This is like a bad cover version of We Didn't Start The Fire.
> > > >
> > > >
> > > >
> > >
> > >
> >
>

Re: [silk] To retire or not - that is the Q.

[Rajesh Mehar]

>> 2) Hired a* professional "family office" investment consultant* to invest
>> and maintain this corpus. I enjoy the financial planning aspect of wealth
>> management, but my weakness is I hate paperwork - and this from a person
>> whose career was built on documentation! So for my own sanity, I decided
I
>> needed this service.

Sandhya: Could you please pass on the contact of this investment
consultant?



>

Re: [ms-stf '63628'] SSLC CCE GRADING SOFTWARE FOR 150 STUDENTS

[Seema Mehar]

On 11 Aug 2016 06:47, "Nagaraju M S"  wrote:

> Nagarajappa M S
> Asst Teacher(Maths)
> Morarji Desai Residential School
> Sarapanahalli
> Chikmagalur-Tq& Dist
>
> --
> 1. If a teacher wants to join STF, visit http://karnatakaeducation.org.
> in/KOER/en/index.php/Become_a_STF_groups_member
> 2. For STF training, visit KOER - http://karnatakaeducation.org.
> in/KOER/en/index.php
> 4. For Ubuntu 14.04 installation, visit http://karnatakaeducation.org.
> in/KOER/en/index.php/Kalpavriksha
> 4. For doubts on Ubuntu, public software, visit
> http://karnatakaeducation.org.in/KOER/en/index.php/
> Frequently_Asked_Questions
> 5. Are you using pirated software? Use Sarvajanika Tantramsha, see
> http://karnatakaeducation.org.in/KOER/en/index.php/Why_public_software
> ಸಾರ್ವಜನಿಕ ಇಲಾಖೆಗೆ ಸಾರ್ವಜನಿಕ ತಂತ್ರಾಂಶ
> ---
> You received this message because you are subscribed to the Google Groups
> "Maths & Science STF" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to mathssciencestf+unsubscr...@googlegroups.com.
> To post to this group, send email to mathssciencestf@googlegroups.com.
> Visit this group at https://groups.google.com/group/mathssciencestf.
> For more options, visit https://groups.google.com/d/optout.
>

-- 
1. If a teacher wants to join STF, visit 
http://karnatakaeducation.org.in/KOER/en/index.php/Become_a_STF_groups_member
2. For STF training, visit KOER - 
http://karnatakaeducation.org.in/KOER/en/index.php
4. For Ubuntu 14.04 installation,visit 
http://karnatakaeducation.org.in/KOER/en/index.php/Kalpavriksha 
4. For doubts on Ubuntu, public software, visit 
http://karnatakaeducation.org.in/KOER/en/index.php/Frequently_Asked_Questions
5. Are you using pirated software? Use Sarvajanika Tantramsha, see 
http://karnatakaeducation.org.in/KOER/en/index.php/Why_public_software 
ಸಾರ್ವಜನಿಕ  ಇಲಾಖೆಗೆ  ಸಾರ್ವಜನಿಕ  ತಂತ್ರಾಂಶ
--- 
You received this message because you are subscribed to the Google Groups 
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To unsubscribe from this group and stop receiving emails from it, send an email 
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Visit this group at https://groups.google.com/group/mathssciencestf.
For more options, visit https://groups.google.com/d/optout.

Re: [silk] Maacher Jhol

[Rajesh Mehar]

Koorka is called kurrukkankizhangu in Tamizh. I think this is also what's
called Arbi in Hindi. Right? Seems to be a pan-Indian tuber? May have been
the precursor to the potato. Would be good to know if someone has already
explored this idea...


>
>

Re: [silk] Tom Athanasiou's TedX talk on the climate crisis

[Rajesh Mehar]

>> Perhaps I’ll ask Tom A. to weigh in also.

That would be outstanding.

On Wed, Aug 3, 2016, 16:10 John Sundman <j...@wetmachine.com> wrote:

> Rajesh,
>
> Thanks for your reply and for the links to those very interesting
> articles. I’ve skim-read them, but I won’t have time to look at them
> closely and respond until next week.
>
> Perhaps I’ll ask Tom A. to weigh in also.
>
> Clearly we’re facing a very complicated situation.
>
> jrs
>
>
>
> > On Aug 3, 2016, at 2:11 AM, Rajesh Mehar <rajeshme...@gmail.com> wrote:
> >
> > Hi John,
> >
> > I appreciate the synthesis of multiple ideas into one talk, but this talk
> > too glosses over a topic that's been bugging me recently. The idea that
> > shifting all our energy needs to 'renewables' is going to be a net
> positive.
> >
> > I would like everyone's thoughts on these two links below, and the idea
> > that without net energy consumption reduction (through
> de-industrialization
> > and reduction of automation, probably Luddite ideas in a group such as
> > Silk) there is no long term benefit from switching to
> so-called-renewables.
> >
> > How Sustainable is Solar Power?
> >
> http://www.lowtechmagazine.com/2015/04/how-sustainable-is-pv-solar-power.html#more
> >
> > SOLAR DEVICES INDUSTRIAL INFRASTRUCTURE
> >
> http://sunweber.blogspot.in/2015/04/solar-devices-industrial-infrastructure.html
> >
> > Really looking forward to this discussion.
> >
> >>
> >>
>
>
>

Re: [silk] Hello (intro)

[Rajesh Mehar]

Hey! You know me from before anyway.

Welcome! I'm quite new here myself.

On Wed, 3 Aug 2016 at 14:48 Madhu Menon  wrote:

> On 3 August 2016 at 13:49, Venkatesh H R  wrote:
> > smattering of Tamil and Hindi. Was anchor at CNN-IBN for 9 years. Numbed
> by
> > TV news, I decided to leave, but
> > it took me 3-4 years to actually leave. I think I'm now doing justice as
> a
> > journalist with my startup NetaData. I like intellectually rewarding and
> > respectful conversation and am happy to be
> > here. Venkatesh
>
> Welcome to silk.
>
> I'm a chef, restaurant consultant, and food photographer based in
> Bangalore.
>
> Regards,
>
> Madhu
>
>

Re: [silk] Bangalore

[Rajesh Mehar]

I would like to make it, but things are a bit unpredictable right now. I'll
keep a track of the venue and time and land up unannounced if that's ok.


>
>
>

Re: [silk] sanitary napkins in brown paper bag ...

[Rajesh Mehar]

Have you tried buying beef yet? :-)

- the guy will either wrap it in

> > a
> > > newspaper or a brown paper bag before putting it inside a plastic bag
> > (not
> > > done for anything else)
>

Re: [silk] What happens to pilots of planes that are hijacked?

[Rajesh Mehar]

Some kind of study tracking pilots of planes that have been hijacked should
exist no?

I'm particularly interested in pilots because they are 'in charge'. They
are not 'caught up' in the events but are placed with the burden of
responding and have the most agency after the hijackers, at least that's
how the public perception of them is.

On Fri, 1 Apr 2016 at 12:17 Suresh Ramasubramanian <sur...@hserus.net>
wrote:

> Ptsd
>
>
> http://www.sltrib.com/sltrib/politics/52420857-90/majid-hijacking-pan-flight.html.csp
>
>
> http://www.amazon.com/Anxiety-000-Feet-Introduction-Psychotherapy/dp/1855759659
>
> --srs
>
> > On 01-Apr-2016, at 12:09 PM, Rajesh Mehar <rajeshme...@gmail.com> wrote:
> >
> > Hello Silkies,
> >
> > This question popped up in my head this morning and St Google didn't
> > provide any good answers.
> >
> > I know that in some cases, the pilot is killed during the events of a
> plane
> > hijack and so this question is moot. But I'm sure that in many hijacking
> > cases, the pilot survives and must live with the paranoia of another
> > possible hijack. Does a hijack affect the mental health of a pilot? Do
> > pilots usually stop flying after being in charge of a plane that was
> > hijacked? Do they continue flying with no seeming psychological after
> > effects?
> >
> > Have any of you read anything about any of this?
> >
> > --Rajesh
>

[silk] What happens to pilots of planes that are hijacked?

[Rajesh Mehar]

Hello Silkies,

This question popped up in my head this morning and St Google didn't
provide any good answers.

I know that in some cases, the pilot is killed during the events of a plane
hijack and so this question is moot. But I'm sure that in many hijacking
cases, the pilot survives and must live with the paranoia of another
possible hijack. Does a hijack affect the mental health of a pilot? Do
pilots usually stop flying after being in charge of a plane that was
hijacked? Do they continue flying with no seeming psychological after
effects?

Have any of you read anything about any of this?

--Rajesh

Re: [silk] Danese in Bangalore...time for a Meetup?

[Rajesh Mehar]

10 min away. Which table are you at Danese?

On Fri, Mar 4, 2016, 18:45 Danese Cooper  wrote:

> How can I be the first one here???
>
> > On Mar 2, 2016, at 2:19 PM, Udhay Shankar N  wrote:
> >
> > Arbor Brewing Company on Magrath road.
> >
> > --
> > ((Udhay Shankar N))  ((via phone))
>
>

Re: [silk] Danese in Bangalore...time for a Meetup?

[Rajesh Mehar]

Don't think Windsor Pub is open before 7 PM on weekdays. I even saw it
closed at 6:30 PM last Sunday. Worth calling and checking.

>
>

Re: [silk] Recommended Reading from 2015

[Rajesh Mehar]

I've enjoyed reading:

Deep Green Resistance by Authors: Aric McBay, Derrick Jensen, Lierre Keith

and

Seasons of Trouble by Rohini Mohan (winner of the Shakti Bhat first book
prize)

On Fri, Dec 11, 2015, 08:43 Radhika, Y.  wrote:

> Children of Air India by Reneé Saklikar (poetry)
> The Jaguar's Children and The Tiger by John Vaillant
> The Illegal by Lawrence Hill
> Don't Tell me you are afraid by Guiseppe Catozzella (english version soon
> in 2016)
> The Sense of an Ending by Julian Barnes
> That Lonely Section of Hell by Lori Shehner (Cop's real life account of the
> botched investigation of murdered aboriginal women in Vancouver's Downtown
> Eastside)
>

Re: [silk] What's your take on this? 1984 happening soon?

[Rajesh Mehar]

"Until now, there hasn't been an easy way to track activity on one and tie
it to another."

I think this is happening anyway, my phone is inextricably linked to my
laptop through Google. Android device, chrome browser, and Google apps that
build up my data base work together to do exactly this right?

h

Re: [silk] Indo-Mexican fusion restaurants and recipes

[Rajesh Mehar]

I've eaten at Chinita several times. The lady who designed the restaurant,
and runs it along with her husband and brother in law, is of Chinese
ethnicity but lived in the US mostly. So, I guess it's reasonable to expect
a certain degree of 'fusion-y-ness' in the food.

Having said that, at Chinita, the flan (the Mexican take on the Caramel
Custard), their braised pork tacos, and their pico di Gallo, all tasted
authentic, in an all-the-ingredients-told-a-credible-story-together way.

On Wed, Oct 21, 2015, 11:10 Vinayak Hegde  wrote:

> On Wed, Oct 21, 2015 at 8:04 AM, Biju Chacko 
> wrote:
> > Starting the obligatory thread drift: does anyone know of an authentic
> > Mexican restaurant in Bangalore? I've experienced little Mexican food and
> > I'd like to fix that.
> >
> > -- b
>
> I like the Nachos bowl at California Burritos[1] (as much as I hate
> recommending a chain, I found them closest to Mexican or rather
> Yucatean food that I had in Mexico). Their guacamole was pretty good.
> Habanero was overpriced and extremely disappointing
>
> -- Vinayak
> 1. http://www.californiaburrito.in/
>
>

Re: [silk] Puns in other languages

[Rajesh Mehar]

In Kannada (and many South Indian languages), there are two possible
pronunciations of the sound corresponding to the English letter L.
Wikipedia says these are called Retroflex Lateral Approximant and Retroflex
Lateral Flap. Usually, while transliterating Kannada, they're written as l
(as in shaale or school) and L (as in baaLe or banana). Many people who are
unfamiliar with these sounds cannot pronounce the two differently.
When you add to this the fact that heLu in Kannada means tell and helu
means shit, there is scope for an abundance of beautiful toilet-humor-ey
puns. Imagine the wrong pronounciations of "tell me now" or "tell me in my
ear" or "tell me right here".

Re: [silk] Renaming Aurangzeb Road

[Rajesh Mehar]

There is an apocryphal story about a Hamilton Bridge in Chennai (used to be
Madras when this story happened) that was pronounced variously by
non-English-speakers as Amton bridge, Umton bridge, etc.

One year, there was a huge drive to have bilingual signs in English and
Tamil. The bridge sported brand new signs reading Barber's Bridge in
English and Ambtan Bridge in Tamil. The closest Tamil word to the
mispronounced English name got retranslated into English to get this
beautiful name change. Ambattan (அம்பட்டன்) = Barber

On Thu, Sep 10, 2015, 19:45 Venkat Mangudi - Silk 
wrote:

> Talking about New... There's a road in Piscataway, NJ called Old New
> Brunswick Road. I'm almost certain that there is a corresponding New New
> Brunswick Road. Guess they just are tired of hunting for new names. :)
> On Sep 10, 2015 6:38 PM, "Sean Doyle"  wrote:
>
> > On Thu, Sep 10, 2015 at 2:27 AM, Venkat Mangudi - Silk <
> > s...@venkatmangudi.com> wrote:
> >
> > > We,  as in Indians,  love renaming stuff. Roads,  cities,  states, and
> > just
> > > above everything else that may or may not belong to anyone in
> particular.
> > > Cologne is now Koln. How is this any different?
> > > On Sep 10, 2015 11:26 AM, "Ekta Bahl"  wrote:
> > >
> > > > No faculty shortage for a "course in corruption" in India.
> > >
> >
> > When I visit Long Island (part of New York State) I'm always amused when
> I
> > see the road signs for "New Highway":
> >
> >
> https://www.google.com/maps/place/New+Hwy,+Amityville,+NY+11701/@40.708254,-73.4014755,17z/data=!3m1!4b1!4m2!3m1!1s0x89e82b3ce1fb74e7:0x114871aa590cfd8c
> > I don't know the history - but "New Highway" has been around for a while.
> >
> > Some times I think - wow - there's no corruption here because no one paid
> > for the highway to get named after themselves. Other days I think that
> this
> > was a mark of 'peak apathy'. But I am amazed that no one has stepped in
> to
> > give it a name.
> >
> > [Unless - of course - it was named after someone named 'New'  :-)]
> >
> >
> > > >
> > > > On Thu, Sep 10, 2015 at 9:17 AM, Udhay Shankar N 
> > > wrote:
> > > >
> > > > >
> > > > >
> > > > > ​
> > > > >
> > > > >
> > > > >
> > > >
> > >
> >
> http://www.deccanherald.com/content/500134/national-law-school-plans-offer.html
> > > > > ​
> > > > >
> > > > >
> > > > >
> > > >
> > >
> >
>

Re: [silk] Beer and bites this Friday in Bombay

[Rajesh Mehar]

Happy birthday Mahesh! Congratulations on 50. With the aid of scientific
advances and good sense, here's to another 75 maybe?

On Tue, 8 Sep 2015 at 12:27 Venkatesh Hariharan  wrote:

> Dear Mahesh,
>
> I will drop in for a while. It's been a long while since we last met.
> Congrats on the half-century :-)
>
> Venky
>
> On Tue, Sep 8, 2015 at 11:46 AM Mahesh Murthy 
> wrote:
>
> > Hey folks, I'm turning 50 this weekend.
> >
> > Given the rise in global warming, onion prices and pollution and my
> general
> > disregard for the RSS, Taliban and common decency, I'm told reaching this
> > far is a feat worth celebrating.
> >
> > So please join me at Doolally Taproom, Candies Lane, opposite Lilavati
> > Hospital, Bombay for beer and bites. Friday Sep 11 from 7pm till late.
> >
> > No gifts please - though if you're feeling generous there will be a
> couple
> > of charities around.
> >
> > Thanks, hope to see you! Sorry for a group invite, but there's no one
> here
> > I would not like to have around :-)
> >
> > Please email my assistant Aarti, copied here if you can make it!
> >
> > Regards,
> >
> >
> > Mahesh
> >
>

Re: [silk] Bangalore meet in September

[Rajesh Mehar]

>> Arbor Brewing Company on Magrath road at
>> 6:30pm?​
>>

> I shall drop in, albeit a little later.

How late is everyone planning to stay? I may be able to make it around 9 PM.


>

Re: [silk] To retire or not - that is the Q.

[Rajesh Mehar]

Hey again Bruce!

Thanks for reviving this thread. I've had a similarly non-linear career
path up until now. I was a full time theater artist and then a full time
musician; both these sucked up all my time but gave back very little money.
Then I worked in online-learning and then did a stint in FM Radio.

Nowadays, I'm more hesitant to make creative leaps across competencies
because there's a pervasive idea that people who are new to a particular
industry should earn less than people who've held similar jobs all their
lives.

Did you ever face that? Or did you manage to somehow earn more and more
money even though you were doing newer things?

PS Udhay: It's getting more difficult to AVOID top posting on the new
Google Inbox app. If I try to delete all quoted text, my entire response
becomes formatted as quoted text. Don't want to set my default setting to
not include conversation history because the world at large had become used
to that 'feature'. Thoughts?

On Sat, Jul 11, 2015, 01:21 Bruce A. Metcalf bruce.metc...@figzu.com
wrote:

On 06/01/2015 10:27 PM, Udhay Shankar N wrote:

Re: [silk] Does The Landline Telephone Need An Heir In The Modern Age?

[Rajesh Mehar]

Isn't Skype already doing exactly this in countless Indian families? Other
than the sentimental philosophising, I actually can't see the value add
from this new product.

Sometimes the 'Indian' sharing mentality anyway stretches the use of
products like Skype and WhatsApp. E.g. I've seen 5 schoolboys all chatting
with one phone using WhatsApp. Don't know who they were chatting to, but I
can imagine that they're sharing the WhatsApp account similar to sharing a
Samosa that they pooled in to buy...

Re: [silk] Food spoilage question

[Rajesh Mehar]

I don't know if I'm revealing some secret (likely not) but Gautam John
likes to leave fish fry out overnight to get a nice souring taste in...
Right Gautam?

Re: [silk] Food spoilage question

[Rajesh Mehar]

There's a Tulu dish called Thawwe. The recipe sounds identical. Is this
Daalithoy the same dish but called so in Konkani?

[silk] Is any industry actually profitable?

[Rajesh Mehar]

Hi Silklisters,

I was reading this morning about a UN sponsored report that tries to factor
in the true costs of industries around the world including environmental
costs which, according to the report, are usually externalized to show
unrealistic profits. It also says that social costs are not even on the
radar, let alone consciously externalized.

http://www.exposingtruth.com/new-un-report-finds-almost-no-industry-profitable-if-environmental-costs-were-included/#ixzz3X7tzZS2h

The website's name made me skeptical of the extent of their claims and I
wanted to check your thoughts on this. The original report by Trucost is
available here:

http://www.trucost.com/_uploads/publishedResearch/TEEB%20Final%20Report%20-%20web%20SPv2.pdf

Best regards,
Rajesh.

Re: [silk] The one word that drives our senseless habits

[Rajesh Mehar]

Although, I think queue-cutting is much more a taboo in modern India than
saying no. I've seen fistfights break out over queue place holders hired
by the well to do in situations where their privilege does not otherwise
allow them to cut in. LPG connections, Passport services, and temples come
to mind as examples.

The deeper point of the article is interesting too. Thanks for sharing
Udhay.

[Samtools-help] Samtools variant without annotation in VCF

[mehar]

Hi all,


I have used samtools for variant calling with the below command:

samtools mpileup -ABugf  ref.fa -l target.bed -d 100 input.bam | 
bcftools view -vcg - | vcfutils.pl varFilter -D 100  SAM.vcf

Some variants do not have the information after column 6. Below is an 
example:

$ grep 62105986 SAM.vcf
chr262105986.CT221

I could not do further analysis with other tools because of this missing 
information. Could someone comment why this happens? and ways to fix 
this. Thanks

Br
Mehar

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Re: [silk] silklist Digest, Vol 62, Issue 13

[Rajesh Mehar]

Wow. Great find! Thanks Dave.

Re: [silk] silklist Digest, Vol 62, Issue 11

[Rajesh Mehar]

 Sorry it's taken me this long to set up, but these models suggest a few
ways one might attempt to make casual programming more attractive, by
relaxing the normal constraints:
 - give people a surplus of resources, so just about anything they
create works[3]  (the flower arranging/spirograph approach)
 - give people resources that don't combine well, so they can
build a few pretty things but not much else (the modern lego kit approach)
 - in normal programming, choice is demonic: one's program needs
to avoid messing up for any situation the environment can throw at it; if
one offered an angelic environment, which only offered situations in
which the program as written could possibly succeed, the job is made much
easier.  (the slow pitch softball approach)
 - a judicious selection of exercises and incremental test cases
would aid the beginner by strongly hinting at the best next step (the
paint by numbers approach)
 - alternatively, someone who put a lot of effort into creating
commonly failing test cases might couple them with explicit hints for
probable fixes (the programmed instruction approach)
 - instead of asking for complete programs, concentrate on what
is the next edit puzzles (the newspaper chess problem/shallow bug
approach)
 - what else?

I've recently been trying to learn a foreign language using Duo Lingo.
Based on mg experience there, I would also propose an algorithmic 'fill in
the blank' kind of format for absolute beginners. First step could be 'pick
the right verb'. Second step would be 'pick the right verb with the right
singular/plural usage'. Third step would be 'pick the right verb with
correct singular/plural usage and tense'. Basically an increasing level of
difficulty with fill in the blank kind of problems. I feel that the real
life language learning resources would map quite well to programming
language learning. In complement with learning programming per se (as
opposed to just the language), I think this kind of exercise would be
attractive to me as a casual novice learner.

-- Rajesh

Re: [silk] silklist Digest, Vol 62, Issue 5

[Rajesh Mehar]

Thanks for these responses Dave. I've been meaning to set aside a few hours
one weekend to go through the links and info you provided. Will get back to
you when I get around to it!

Re: [silk] So, hi! An introduction

[Rajesh Mehar]

 To turn the question around: What are you interested in? What sort of thing
do you want to build?
 Web apps?
 In-browser games?
 Robots?
 Software to model quantum field theoretic models of nucleus formation?

Actually Alaric, when I'm not having fantasies about writing my own Android
Apps, I mostly want to just get back to writing different types of basic
programs and be able to introduce my younger relatives (nieces, nephews, my
own child when he grows up a bit) to the joys of programming. When I was
young (in the times of MS Dos 6.22) the computer was not an opaque thing
that did stuff that I couldn't understand how it did. I want to get back to
that level of comfort with 'looking under the hood'. I have 3 computers at
my disposal, one Windows, one Mac, and one Linux (Ubuntu).


You can do what I did. Pick a language you are most comfortable with, and

attack https://projecteuler.net/problems


Udupa, people have suggested Python as a flexible language that will help
me do a variety of things. Can I get started on these problems using
Python? Which language have you been using?

Thank you everyone for entertaining my silly whims. :-)

Re: [silk] So, hi! An introduction

[Rajesh Mehar]

Hi Esther!

I suspect I was the newest kid on the block before you arrived. :-)

Your work experience sparked a thought in me.

I studied (and really enjoyed) programming beginning with GW Basic on a ZX
Spectrum and then Quick Basic on a 386 DX2. Then I studied C and C++ in
engineering college before making a couple of career shifts and COMPLETELY
losing touch with programming.

I've been looking to get back to it. Any ideas on how I can get started on
this project? I may be able to afford a couple of hours a week.

-- Rajesh

Re: [silk] Recommended Reading from 2014

[Rajesh Mehar]

My own reading seems to be VERY different from all the others on this
thread, but I wanted to mention a few books that have affected me deeply
this year:

1) The First 20 Minutes by Gretchen Reynolds. This book brings together all
the latest research on fitness, working out, athletic performance, injury
prevention, and the effects of exercise on longevity and genetics. It's
written at just the right level of complexity, not to simplified as to lose
the nuance of each research paper, but simple enough for the layperson to
understand the findings of each. The book's title comes from the finding
that the greatest percentage gain in health benefit comes from one event:
getting off your butt and exercising. And after the first 20 minutes PER
DAY of exercise, the percentage benefit drops off sharply.

2) Seasons Of Trouble by Rohini Mohan. A book chronicling three lives of
people caught up in the end and aftermath of the civil war in Sri Lanka.
For someone who has, thankfully, never lived through conflict or war, I
found myself appreciating the futility of ANY response to such conditions.
People in the book chose combat, disengagement, and avoidance, yet end up
with their lives destroyed beyond recognition.

3) How to Worry Less About Money by Michael Armstrong (??). I'm recalling
the names and they might not be entirely accurate. This short, but
excellent, read articulates money concerns and thinking about money in a
coherent and we'll a categorized manner. I found that my own relationship
with money is bound up with emotional baggage from various other parts of
my life. And understanding those underlying factors has made me much more
at peace with my money and my relationship with it.

Other books which I won't describe in detail: A Thousand Faces Of The Night
by Gita Hariharan, Creative Strategy by William Duggan, and Cooked by
Michael Pollan.

Re: [silk] The least random number

[Rajesh Mehar]

I think I'm one of the most recent joiners. Udhay told me about the list
after we met at Kiran's house.

Many people have mentioned the legendary threads of yore. Any links to the
archives for the n00bs?

Happy holidays to y'all!

--Rajesh

[Samtools-help] Hom Vs Het variant calls

[mehar]

Hi all,

I have a variant detected in four samples using samtools-0.1.19 as shown 
below

In one of the sample it is identified as het variant with 1 RefAllele 
reads and 7 AltAllele reads whereas it is identified as homozygous 
variant in the other three samples. We did preformed capillary 
sequencing in the lab and it turned out to be homozygous in all the 
samples.
Would you please let me understand the method behind the algorithm which 
led to identify the variant as heterozygous?


chr3037342399.CT95.3. 
  DP=5;VDB=4.238324e-02;AF1=1;AC1=2;DP4=0,0,3,2;MQ=60;FQ=-42  GT:PL:GQ   
  1/1:128,15,0:27

chr3037342399.CT149. 
  DP=9;VDB=3.473591e-02;AF1=1;AC1=2;DP4=0,0,2,7;MQ=60;FQ=-54  GT:PL:GQ   
  1/1:182,27,0:51

chr3037342399.CT220. 
  DP=14;VDB=1.072004e-01;AF1=1;AC1=2;DP4=0,0,6,8;MQ=60;FQ=-69 
  GT:PL:GQ1/1:253,42,0:81

chr3037342399.CT102. 
  
DP=8;VDB=1.068485e-01;RPB=8.141118e-01;AF1=0.5263;AC1=1;DP4=0,1,1,6;MQ=60;FQ=-17.1;PV4=1,0.035,1,0.42
  GT:PL:GQ0/1:132,0,10:13

Thanks

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Re: [silk] best indian whisky and rum ?

[Rajesh Mehar]

I would second (or is it third) the Amrut range. They have 3 variants.
Amrut Single Malt, Amrut Fusion, and Amrut Peated. I personally like the
peated whiskey the best. It has a much more dense and smoky flavor to it. I
would rank the Fusion second, followed by the regular variant.

[Samtools-help] Fwd: N in ALT column

[mehar]

Hello,

Could someone comment on the below question. Any suggestions are 
valuable.sasaaa



 Forwarded Message 
Subject:[Samtools-help] N in ALT column
Date:   Tue, 28 Oct 2014 15:19:56 +0200
From:   mehar meharji.arumi...@helsinki.fi
To: 	samtools-help@lists.sourceforge.net 
samtools-help@lists.sourceforge.net




Hi,

I have performed variant calling with samtools for canine genome. For
some reason some of the variants have N in ALT column as shown below:

chr2129989187.AAN96.506004646 1

Could someone help to understand what it means?


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[Samtools-help] N in ALT column

[mehar]

Hi,

I have performed variant calling with samtools for canine genome. For 
some reason some of the variants have N in ALT column as shown below:

chr2129989187.AAN96.506004646 1

Could someone help to understand what it means?


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Re: [Samtools-help] HardFiltering variants

[mehar]

Hi,

Thank you for your response.

I am dealing with dog genome which is a diploid organism and as big as 
human genome. We have both WGS and WES data, and struck with huge amount 
of variants in both the datasets and would like to do hard filtering to 
start off.


In the paper http://arxiv.org/pdf/1404.0929.pdf; certain filters which 
are applicable to a set of variant callers are choosen and applied to 
their datasets. However, any thresholds were not mentioned.


Would be valuable if someone can cite filters to be applied specific to 
samtools.


Regards
Mehar
On 08/10/14 18:20, Tim Fennell wrote:
Depending on a) whether you’re dealing with human, another diploid 
organism or something else and b) what kind of data you have (wgs, 
exome, other) you might start with Heng’s CHM1 paper as an interesting 
read:

http://arxiv.org/pdf/1404.0929.pdf

-t

On Oct 8, 2014, at 9:58 AM, mehar meharji.arumi...@helsinki.fi 
mailto:meharji.arumi...@helsinki.fi wrote:



Hi all,

Knowing the fact that filtering variants manually, using thresholds 
on quality values, is subject to all sorts of caveats i am writing 
this to seek some suggestion for hard filtering variants as it is 
better than nothing.


Could someone provide *generic recommendations* using samtools that 
should at least provide a starting point to analyse the data.


Awaiting for suggestions!!

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Re: [Samtools-help] HardFiltering variants

[mehar]

Hi.

Follow-up to my previous email, vcftools is used to filter based on 
different quality annotations as shown below:


Usage:   vcfutils.pl varFilter [options] in.vcf

-Q INTminimum RMS mapping quality for SNPs [10]
 -d INTminimum read depth [2]
 -D INTmaximum read depth [1000]
 -a INTminimum number of alternate bases [2]
 -w INTSNP within INT bp around a gap to be filtered [3]
 -W INTwindow size for filtering adjacent gaps [10]
 -1 FLOAT  min P-value for strand bias (given PV4) [0.0001]
 -2 FLOAT  min P-value for baseQ bias [1e-100]
 -3 FLOAT  min P-value for mapQ bias [0]
 -4 FLOAT  min P-value for end distance bias [0.0001]
 -e FLOAT  min P-value for HWE (plus F0) [0.0001]
 -pprint filtered variants

Any suggestions on which of these parameters and thresholds to use is 
what i am looking as a starting point.

On 09/10/14 13:13, mehar wrote:

Hi,

Thank you for your response.

I am dealing with dog genome which is a diploid organism and as big as 
human genome. We have both WGS and WES data, and struck with huge 
amount of variants in both the datasets and would like to do hard 
filtering to start off.


In the paper http://arxiv.org/pdf/1404.0929.pdf; certain filters 
which are applicable to a set of variant callers are choosen and 
applied to their datasets. However, any thresholds were not mentioned.


Would be valuable if someone can cite filters to be applied specific 
to samtools.


Regards
Mehar
On 08/10/14 18:20, Tim Fennell wrote:
Depending on a) whether you’re dealing with human, another diploid 
organism or something else and b) what kind of data you have (wgs, 
exome, other) you might start with Heng’s CHM1 paper as an 
interesting read:

http://arxiv.org/pdf/1404.0929.pdf

-t

On Oct 8, 2014, at 9:58 AM, mehar meharji.arumi...@helsinki.fi 
mailto:meharji.arumi...@helsinki.fi wrote:



Hi all,

Knowing the fact that filtering variants manually, using thresholds 
on quality values, is subject to all sorts of caveats i am writing 
this to seek some suggestion for hard filtering variants as it is 
better than nothing.


Could someone provide *generic recommendations* using samtools that 
should at least provide a starting point to analyse the data.


Awaiting for suggestions!!

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[Samtools-help] bcftools filtering

[mehar]

Hi all,

I have used bcftools to filter the variants on my WES dataset with the 
below shown parameters:


vcfutils.pl varFilter -Q 40 -d 10 -a 10 SamSNP.vcf | awk '$6=30'

In detail, RMSmapping quality, Q 40
minimum depth 10
minimum reads for alternate base 10

and then QUAL=30

Then i tried to investigate the resulting variants which are shown below:

chr118440259.AG24. 
DP=41;VDB=3.198325e-03;RPB=-2.855659e+00;AF1=0.5;AC1=1;DP4=17,11,11,0;MQ=53;FQ=27;PV4=0.017,1.2e-08,2e-37,1 
GT:PL:GQ0/1:54,0,242:57
chr178618486.TC8.64. 
DP=62;VDB=1.595146e-01;RPB=-8.823841e-01;AF1=0.5;AC1=1;DP4=3,37,2,16;MQ=46;FQ=11.3;PV4=0.64,1,7.8e-21,0.3 
GT:PL:GQ0/1:38,0,192:40
chr184078188.GA6.98. 
DP=71;VDB=8.165945e-03;RPB=7.733564e-01;AF1=0.4999;AC1=1;DP4=21,30,11,9;MQ=52;FQ=9.53;PV4=0.43,0.21,2.3e-36,1 
GT:PL:GQ0/1:36,0,255:37
chr184078211.TC9.52. 
DP=68;VDB=7.138134e-03;RPB=3.693204e+00;AF1=0.5;AC1=1;DP4=16,32,10,9;MQ=52;FQ=12.3;PV4=0.17,1,9.9e-34,1 
GT:PL:GQ0/1:39,0,255:41
chr184078212.GA8.64. 
DP=67;VDB=7.138134e-03;RPB=3.894576e+00;AF1=0.5;AC1=1;DP4=16,31,10,9;MQ=52;FQ=11.3;PV4=0.18,0.015,3.6e-33,1 
GT:PL:GQ0/1:38,0,255:40
chr184078223.CA4.77. 
DP=62;VDB=1.658616e-03;RPB=3.810234e+00;AF1=0.4999;AC1=1;DP4=16,30,9,6;MQ=53;FQ=6.99;PV4=0.13,0.0041,1.1e-30,0.0018 
GT:PL:GQ0/1:33,0,255:33
chr1102442684.AC30. 
DP=80;VDB=2.593477e-02;RPB=2.321748e+00;AF1=0.5;AC1=1;DP4=9,49,0,19;MQ=51;FQ=33;PV4=0.1,1,3.1e-15,0.39 
GT:PL:GQ0/1:60,0,229:63



Despite the QUAL value is less than 30, most of the variants have good 
coverage. I wonder how these variants should be treated. Could someone 
comment on this behaviour to get a better understanding whether to 
discard or retain these variants.



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[Samtools-help] HardFiltering variants

[mehar]

Hi all,

Knowing the fact that filtering variants manually, using thresholds on 
quality values, is subject to all sorts of caveats i am writing this to 
seek some suggestion for hard filtering variants as it is better than 
nothing.


Could someone provide *generic recommendations* using samtools that 
should at least provide a starting point to analyse the data.


Awaiting for suggestions!!

--
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Re: [silk] USA West Coast restaurant recommendations

[Rajesh Mehar]

 (About 3 weeks or so will be spent in NYC, but I'm set there.)


Oops. I was eager to give you NYC recommendations, because that's the only
American city I've been to. Care to share what your itinerary there is?

Do you have some Chinese places in Queen's planned? I know a great one...

Re: [silk] To retire or not - that is the Q.

[Rajesh Mehar]

 ... several card carrying members of Alcor ...


Funny to see Shoba Narayan's I want to die at 75 article and mentions of
Alcor in the same thread. So, I guess another question worth asking is what
percentage of one's life is one aiming to spend in retirement?

With current levels of medical science and reasonably good health (no
chronic smoking, no congenital conditions, etc.), maybe 100 is the aim? If
yes, then if I retire this year (at age 34), I would spend 70% of my life
in retirement, if I lived till the age of 100?

Re: [silk] USA West Coast restaurant recommendations

[Rajesh Mehar]

Sorry for the slightly spammy advice Madhu:

I've recently been reading Michael Pollan's COOKED. In it, he describes
this place called The Skylight Inn in Ayden, North Carolina, where they
specialize in barbecuing whole hogs:

But this a most unusual kitchen, one where the principal cooking
implements are wheelbarrows and shovels, and the pantry, such as it is,
contains nothing but hogs, firewood, and salt. In fact, the entire building
is a kind of cooking implement, as Samuel explained: We were inside the
giant low-temperature oven for the gentle smoking of pigs. Just how tightly
the cookhouse is sealed--even the pitch of its roof--all influence the way
the meat cooks.

After the hogs are on, Howell begins shoveling wood coals underneath them,
transferring the smoldering cinders, one spade-full at a time, from the
hearths, now glowing a deep red, across the room to the pits. Carefully
pouring the incandescent coals between the iron bars, he arranges a line of
fire roughly around the perimeter of each hog, a bit like the chalk line
silhouetting the body at a crime scene. He puts more coals at the ends than
in the middle to compensate for the fact that the different parts of the
hog cook at different rates. That's just one of the challenges of
whole-hog cooking, Samuel explained. Cooking just shoulders, like they do
over in Lexington, now that's a whole lot easier to control. Samuel snorts
the word shoulders derisively, as if cooking pork shoulders was like
throwing frankfurters on the grill. 'Course, that's not barbecue in our
view.

After he's arranged the coals to his satisfaction, Howell splashes water on
the backs of the hogs and sprinkles a few generous handfuls of kosher
salt--not to flavor it, Samuel said, but to dry out the skin and encourage
it to blister, thereby helping to effect its transubstantiation into
crackling.

It is a long, laborious way to cook. Mr Howell will shovel a few more coals
around the drip line of each pig every half hour or so until he leaves for
the evening at six. Several hours later, around midnight, co-owner Jeff
Jones, whom everyone seems to call Uncle Jeff, will have to stop back in to
check if the pigs need any more heat on them. The idea behind the line of
perimeter fire is to build a lasting, indirect source of heat, so that the
hogs cook as slowly as possible through the night. Yet at the same time you
want those coals close enough to the pigs' drip line so that when its back
fat begins to render, some of it will have some nice hot coals on which to
drip. The sizzle of those drippings sends up a different, meatier kind of
smoke, which adds another layer of flavor to the pork. It also perfumes the
air in a way that a wood fire alone does not.

That perfume is what I could smell from the road, and what I was beginning
to smell again. Even now, standing here in the middle of this sepulchral
chamber slightly starved for oxygen, hemmed between these two serried ranks
of the porky dead, I was more than a little surprised to register somewhere
deep in my belly the first stirrings of... an appetite!

--

YOU SHOULD GO MADHU!! Come on!

Re: [silk] To retire or not - that is the Q.

[Rajesh Mehar]

Fifteen more years has also given me some perspective on the importance of
doing *work you believe has enduring value*, and of the need for down time
to keep work from being the force driving you.

@Bruce: This is really interesting stuff for me. Could you write a little
bit about how you decided what work would have enduring value? Do you also
think about the magnitude of impact your work has/will have? How do you
measure value and impact?

Re: [silk] E.T go home :)

[Rajesh Mehar]

I'm very interested in your ideas on pop-up dinners! Welcome Charanya. And
let me know if y'all are meeting up to discuss food, while eating food.

Re: [silk] E.T go home :)

[Rajesh Mehar]

 Hi Rajesh,
 I am keen on a night out with Korean food.  If there are more people
 interested,  we could plan something soon to eat and make merry :)


If you haven't yet been, there are two really nice Korean places in
Bangalore. One called Arirang in the Kammanahalli area (north Bangalore).
And one more called Soo Ra Sang in the Indiranagar area (southish-eastish
Bangalore). It would be great if I could get about a week's notice.

Anyone else interested in food conversations? Madhu, I assume you're in...

Re: [silk] Slacktivism

[Rajesh Mehar]

I have no attachment or antagonism towards the Ice Bucket Challenge
campaign, but what the viral-ness of the campaign has caused is increased
scrutiny, and consequently some interesting revelations. This link below
talks of one FB user's research that for every $100 contributed to the
cause, only $7 goes to research.

http://www.dnaindia.com/world/report-facebook-user-claims-that-only-7-of-als-challenge-donations-go-towards-research-2013571

Somehow, this fact (??) brings to the fore of my mind the skeptical part of
me who is deeply suspicious of large charitable organizations that have
mega marketing budgets and humongous 'administrative costs'.

Re: [silk] Project Tarana

[Rajesh Mehar]

Hi Sandhya,

Congratulations on your beautiful journey and Tarana. We're hoping to adopt
too, we're waiting for our first (biological) child to get a bit older
before embarking upon the journey.

All the best.